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Genomic organization and comparative chromosome mapping of U1 snRNA gene in

fish, with emphasis in Oreochromis niloticus*

D.C. Cabral-de-Mello1,*, G.T. Valente2, R.T. Nakajima2 and C. Martins2

1UNESP – Univ Estadual Paulista, Instituto de Biociências/IB, Departamento de Biologia,

Rio Claro, São Paulo, Brazil

2UNESP – Univ Estadual Paulista, Instituto de Biociências/IB, Departamento de Morfologia,

Botucatu, São Paulo, Brazil

Short running title: Genomic organization and mapping of U1 snRNA in cichlid fish

* Corresponding author: UNESP - Univ Estadual Paulista, Instituto de Biociências/IB,

Departamento de Biologia, CEP 18618-000 Botucatu, SP, Brazil Phone/Fax: 55 14 38116264. e-mail: [email protected]

*Cabral-de-Mello DC, Valente GT, Nakajima RT, Martins C (2012) Genomic organization and comparative chromosome mapping of the U1 snRNA gene in cichlid fish, with an emphasis in Oreochromis niloticus. Chromosome Research 20(2): 279-292.

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Abstract

To address the knowledge of genomic and chromosomal organization, and evolutionary patterns of U1 snRNA gene in cichlid fish this gene was cytogenetically mapped and comparatively analyzed in 19 belonging to several clades of the group. Moreover, the genomic organization of U1 snRNA was analyzed using as reference the Oreochromis niloticus genome. The results indicated a high conservation of one chromosomal cluster of

U1 snRNA in the African and Asian species with some level of variation mostly in the South

American species. The genomic analysis of U1 revealed a distinct scenario of that observed under the cytogenetic mapping. It was observed just an enrichment of U1 gene in the linkage group (LG) 14, that do not correspond to the same chromosome that harbors the U1 cluster identified under the cytogenetic mapping. Moreover it was revealed the presence of several distinct transposable elements in the U1 gene flanking regions that could be involved in the spreading of this sequence, being the origin of new snRNA large clusters hampered. The results reinforce the utility of integrative analysis, as the use of cytogenetic and bioinformatics methods, to address the genomic and chromosomal evolutionary patterns of multigene families among vertebrates. Moreover, the U1 gene represents a useful new chromosomal marker for purposes of cytogenetic studies.

Key-words: chromosomal evolution, cytogenetic, FISH, genome, multigene family

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Introduction

In eukaryotes protein-coding mRNA introns are excised and the exons spliced together in the primary transcript by the spliceosome machinery. The spliceosome consists of large RNA- protein complex containing of up to 200 proteins and five types of metabolically stable non- coding RNAs known as U small nuclear RNAs (snRNAs), U1, U2, U4, U5 and U6

(Bringmann and Lührmann 1986; Nilsen 2003; Valadkhan 2005). The U snRNA genes were isolated from a variety of eukaryotes and they were reported to be in multiple copies dispersed thought the genome, however some cases of tandemly repeats were also found (see for example, Wise and Weiner 1980; Marzluff et al. 1983; Mattaj and Zeller 1983; Watanabe-

Nagasu et al. 1983; Van Arsdell and Weiner 1984). Recently Marz et al. (2008) investigated in detail the evolutionary history of snRNAs gene families using data of completely or partially sequenced metazoan genomes, revealing that they behave like mobile elements exhibiting very little syntenic conservation.

At chromosomal point to view, the mapping of snRNA genes was performed in few species. For example, the U1 snRNA gene/pseudogene was cytogenetically mapped in humans (Lund et al. 1983; Lindgren et al. 1985) and mouse (Lund and Nesbitt 1988), and in fish the U2 snRNA gene was mapped in four Batrachoididae and two Moronidae representatives (Merlo et al. 2010; Úbeda-Manzanaro et al. 2010). Moreover, in two crustaceans (Asellus aquaticus and Proasellus coxalis) and in another fish (Solea senegalensis) a repetition of 5S rRNA gene linked to snRNAs sequences were also mapped

(Pelliccia et al. 2001; Barzotti et al. 2003; Manchado et al. 2006).

The family Cichlidae includes more than 3.000 species (Helfaman et al. 1997,

Salzburger and Meyer, 2004), being one of the most species-rich families of vertebrates

(Nelson, 2006), distributed on Africa, Latin America and Madagascar, with few species in

South India and the Middle East (Genner et al. 2007). The cichlid representatives found in the !"#$%&'& (,& lakes of Africa have served as model systems for the study of evolution (Kornfield and Smitth

2000, Kocher 2004, Genner et al 2007) and some species have received increasing scientific attention due their great importance to aquaculture (Pullin 1991). Due its great scientific importance some cichlid genomes have been sequenced, i.e. Oreochromis niloticus,

Pundamilia nyererei, burtoni, Neolaprologus brichardi and Metraclima zebra

(Cichlid genome consortium), permitting the integration of nucleotide sequence information and chromosomal data in the understanding of karyotypic and genomic diversification in the group.

To advance in the knowledge about chromosome evolution and genomic organization of multigene families in and to contribute in the construction of a cytogenetic map in this group, here it was performed the mapping of U1 snRNA gene by fluorescence in situ hybridization (FISH) in 19 cichlid species. Moreover, analysis of the genomic organization of

U1 snRNA sequence was addressed using as reference the Nile tilapia, O. niloticus. The results obtained are discussed on the focus of the chromosomal conservation of one cluster of

U1 snRNA genes in diverse cichlid lineages and a spread pattern of genomic organization of this gene in O. niloticus. In this way, this paper reinforces the importance of integration between cytogenetic and genomic analysis in the elucidation of genome evolution.

Material and Methods

Animals, DNA extraction and chromosome obtaining

The 19 analyzed species of African, South American and Asian cichlids were obtained from commercial source, from wild stocks (mainly from the , East Africa) maintained at the Tropical Aquaculture Facility of University of Maryland, USA and directly from

Brazilian hydrographic systems (Table 1). Metaphase chromosome spreads were obtained from kidney cells according to the protocols of Bertollo et al. (1978). Genomic DNA !"#$%&'& (-& extraction was performed according standard phenol-chloroform procedures (Sambrook and

Russel, 2001) using liver previously stored in 100% ethanol.

Analysis of U snRNAs genes and their flanking regions in Oreochromis niloticus genome

The genes of U1 snRNAs (NR_004430), U2 (NR_002716) and U5 (NR_002756) of human were used as queries in blast (blastn) search against O. niloticus genome

(Tilapia_broad_v1 genome), allocated in BouillaBase database (www.buillabase.org) (at 20-

05-2011 for U1 and 10-07-2011 for both U2 and U5), to reveal the presence of these genes in the Nile tilapia genome. The matches with significant similarities were retrieved using the cut off E-values ! 5e-13 for U1, ! 4e-11 for U2 and ! 3e-10 for U5.

The putative U1 sequences of O. niloticus were retrieved with their relative scaffolds and the U1 copies were used as the queries in blast (megablast) search against NCBI nucleotide collection (http://www.ncbi.nlm.nih.gov/nucleotide/). Moreover these sequences were assembled using an assembly tool of Geneious 4.8.5 software and the human U1 gene

(NR_004430) as reference.

New queries for each U1 annotated entries were built for a second step of analysis involving 1,000 bp upstream and 1,000 bp downstream flanking regions (FRs) of each U1 gene copy. When upstream and downstream FRs analyzed included the U1 gene, it was named FRU; the analyzes of upstream and downstream FRs excluding the U1 gene was named FR. However U1 annotated entries of each FR were excluded in attempt to decrease the redundancy of results; the Ns were excluded in FRs as well.

Each FRs were used as queries in blast (megablast and discontinuous_megablast) searches against NCBI nucleotide collection and each FRUs were used as queries in the searches against Repbase database (Jurka et al. 2005) at Genetic Information Research

Institute (Giri) (http://www.girinst.org/repbase/) using the CENSOR software (Kohany et al. !"#$%&'& (.&

2006). The analysis in Giri became able to find repeated sequences such as transposable elements (TEs) in the flanking FRs and FRUs regions. To further the comparison among the

FRUs regions, all sequences were submitted to assembling using the assembling tool of

Geneious 4.8.5.

Moreover it was performed a search for open reading frames (ORFs), using a tool of

Geneious 4.8.5 searching by a minimum size of 15 aminoacid (aa) residues, in attempt to check the potential protein-coding regions and possible capacity of transpositions of the TEs found by analysis in Repbase database (Jurka et al. 2005). The search for potential protein- coding of the TEs was performed in all scaffolds, except in scaffold 255 due its absence of

TEs in the FRUs reveled in the previous analysis in Repbase. After, the aminoacid (aa) residues were submitted to searches against Repbase database (Jurka et al. 2005), as already described. When necessary some sequences were re-submitted to blast searches at NCBI nucleotide collection and all annotation procedures and alignment editing were performed using this Geneious 4.8.5.

Sequences isolation, probes obtaining and labeling

Partial sequence of U1 snRNA gene was obtained by Polymerase Chain Reaction

(PCR) from the genome of the cichlids O. niloticus and Cichla kelberi. The primer set was deduced from U1 snRNA coding sequences of O. niloticus. PCR products of U1 snRNA gene were directly isolated from agarose gel, purified and labeled with digoxigenin-11-dUTP

(Roche, Mannheim, Germany) by PCR and used as probe for fluorescence in situ hybridization (FISH).

In order to compare the chromosomal location of U1 snRNA genes with the 5S rRNA genes complete units of the 5S rDNA repeats (including the gene and NTS) were isolated from O. niloticus by PCR using the primers 5SA and 5SB (Martins and Galetti, 1999) and !"#$%&'& (/& labeled by nick translation using biotin-14-dATP (Invitrogen, San Diego, Calif., USA).

Moreover, to confirm the presence of U1 snRNA main cluster (detected through FISH experiments) in the LG14, that correspond to the scaffolds with more copies of U1 snRNA gene (see results section), one BAC from LG14 was selected from O. niloticus a genomic library containing the gene CLDN13 (BAC ID b03TI074O18) to be used as probes for FISH.

BAC extraction was conducted using the PhasePrep®TM BAC DNA Kit (Sigma-Aldrich, St

Louis, MO, USA) according to supplier’s protocol. The BAC clone was labeled with biotin coupled nucleotides (Roche Applied Sciences, Indianapolis, IN, USA) using whole genome amplification kit (WGA2) (Sigma), according to the supplier’s protocol.

Fluorescence in situ hybridization

Fluorescence in situ hybridization was performed using the protocol described by

Pinkel et al. (1986), with modifications implemented in Mazzuchelli et al. 2011. The slides were denatured in 70% formamide/2xSSC, pH 7 for 30-36 seconds, and dehydrated in an ice- cold ethanol series. 30"l of probe mixture (containing at least 100 ng of each DNA probe) were hybridized under a cover slip in a 37°C moist chamber for 18 h. Slides hybridized with repetitive sequences (5S rRNA and U1 snRNA genes) were washed one time in 2xSSC at 62 oC and for BAC-FISH experiments the slides were washed two times for 5 min in 50% formamide/2xSSC, pH 7 at 43 °C with agitation, then 10 min in 2xSSC, pH 7 at 42 °C with continuous agitation. The probe labeled with digoxigenin-11-dUTP (Roche, Mannheim,

Germany) was detected using anti-digoxigenin-rhodamine (Roche, Mannheim, Germany), and probes labeled with biotin-14-dATP (Invitrogen, San Diego, Calif., USA) were detected by avidin-FITC (fluorescein isothiocyanate) conjugate (Sigma-Aldrich, St Louis, Mo., USA).

All of the preparations were counterstained with DAPI, and the coverslips were added after the application of Vectashield (Vector, Burlingame, CA, USA) mounting medium. The !"#$%&'& ((& images were captured using an Olympus BX61 microscope linked to an Olympus DP71 digital camera. For some metaphases the chromosomes were captured in grayscale. The brightness and contrast of the images were optimized using Adobe Photoshop CS2. At least

15 good hybridized metaphases per species were analyzed to define precisely the position of studied markers.

Results

The U1 gene organization in O. niloticus genome

The blast search using the human U1 (164 bp), U2 (188 bp) and U5 (117 bp) genes as queries against Tilapia_broad_v1 genome retrieved 13 U1 gene copies, 12 U2 gene copies and 8 U5 gene copies. For each result, the putative copies were ranked accordingly E-value and named from gene_1, gene_2, gene_3, consecutively. These copies are allocated in 6 scaffolds for both U1 and U2 genes and 4 scaffolds for U5 gene (Table 2; supplementary files

1 and 2). Sinteny among these genes were revealed only in the scaffold 70 (Figure 1).

The blast search against NCBI databases using all putative U1 copies as queries showed that almost all sequences have similarities with U1 gene identified in a range of vertebrates, including fishes, amphibians, chicken and mammals, which in general have E- values ! 4e-12. However, the U1_6 blast results include just hits with non-annotated sequences of Tetraodon nigroviridis (accession number CR713323.2), Cynoglossus semilaevis (accession number GQ426765) and several sequences of Danio rerio, which in general are also present in the blast results of other U1 copies, being that the exception are the blast results of the U1_10, U1_11 and U1_12 (Supplementary file 4). Despite of differences in length and in the nucleotide sequence among the U1 copies of O. niloticus, all sequences were assembled using human U1 gene as reference, showing 91,8% of pairwise identity and

73,3% of identical sites. In comparison to the human sequences, just the U1_6 and U1_8 have !"#$%&'& (0& a compatible length with standard U1 gene. The other copies are shorter than the standard sequences and are predicted to be truncated U1 copies, but in the case of U1_1, U1_2, U1_4 and U1_5 the short lengths are due the absence of an assembling of the upstream regions for these sequences in their scaffold (scaffold 70) (Table 2; Figure 2; Supplementary file 3).

The blast analysis using all FLRs as queries against NCBI reported similarities with six sequences with reliable E-value (a cut of ! 2e-09). Interestingly one result reveled a hit with Tetraodon nigroviridis (accession number CR713323.2), which flanks the upstream sequence of U1_9 (Table 1; Supplementary files 7 and 10). The analysis of FLRU in Giri reveled similarities with 13 TEs and, in the U1_12 and U1_13 copies, which are the smallest sequences, the TEs are matching with these copies. Interestingly the putative non-truncated copies (U1_6 and U1_8) have few or no TEs in their flanking regions (Table 2; Figure 1;

Supplementary file 9). Moreover, almost all U1 copies matches with U1_LV repeat sequence, which is the U1 gene of the sea urchin Lytechinus variegatus (accession number X01749)

(Brown et al. 1985). Interestingly the upstream flanking region of U1_9 with similarities to T. nigroviridis sequences also matches partially with U1_LV. Thus, the results conduct to extent the U1_9 sequence to 59 bp upstream (U1_9_long) due to the similarities with U1_LV and by alignment with other U1 copies. The blast (blastn) search using these sequences as queries against NCBI databases showed similarities with U1 genes in a range of vertebrates.

Moreover it could be possible to annotate one more putative U1 sequence with 63 bp length, which is allocated upstream to U1_9 but in the opposite DNA strand, due to the similarities with T. nigroviridis, that could be a non-annotated U1 sequence, with alignment to other U1 copies and overlapping with U1_LV, performing the U1_9 long sequence (Supplementary file 10).

The results of the comparisons among the FRUs showed that in general the flanking regions have few identities among them. The exceptions were the downstream flanking !"#$%&'& (1& regions of U1_12 and U1_13 (identity of 91.8% of matched sequences) and the upstream flanking regions of the U1_9 and U1_11 (identity of 71.8% of matched sequences) (Figure 2;

Supplementary file 12).

The search for potential protein-coding of the TEs revealed a high amount of ORFs and 36 ORFs were selected due their partial overlapping with these TEs. After the translation, the search in Giri using the predicted aa residues reveled that five of these sequences have partial similarities with transposable elements (Figure 1; Supplementary file 13). Interestingly the downstream flanking regions of U1_12 and U1_13 that were aligned share two ORFs that potentially codes four proteins being two of them putatively codifying the same TE. The similar situation was observed in the upstream flanking regions of the U1_9 and U1_11, which share a long ORF that codifying similar elements.

Comparative chromosomal mapping of U1 snRNA gene

All species studied presented only two small clusters of U1 snRNA located mainly in terminal position of a homolog chromosomal pair, although interstitial and proximal sites were also observed (Figure 3; Table 1). The African species showed the clusters of U1 snRNA gene exclusively in the terminal position of one subtelo/acrocentric (st/a) chromosomal pair (Figure 3; Table 1). Etroplus maculatus (Asiatic) showed a small st/a chromosome bearing the U1 snRNA gene cluster occupying the interstitial position (Figure 3;

Table 1).

In the South American species, more variable patterns were observed related to the specific position of the marker studied and concerning the morphology of U1 snRNA gene bearer chromosome (Figure 3; Table 1). Retroculus lapidifer, Cichla kelberi, Biotodoma cupido, Aequidens tetramerus, Heros efasciatus, Geophagus brasiliensis, G. proximus and

Satanoperca jurupari showed the clusters of U1 snRNA gene in one st/a chromosomal pair, !"#$%&'& 0)& terminally located in the first five species, in the interstitial position in G. brasiliensis and proximally located for the remaining two species. In Astronotus ocellatus and Mesonauta festivus the U1 snRNA gene clusters were located terminally in a meta/submetacentric

(m/sm) pair, terminal in the long arm for A. ocellatus and proximal in the short arm for M. festivus.

To check the correspondence of U1 chromosomal organization with the LG14 (which contains a high number of U1 copies) U1 probes and the BAC ID b03TI074O18 (that is a marker for the LG14, were mapped through multicolor-FISH. Unfortunately the high stringency condition of the BAC hybridization procedure did not allow visualizing de U1 signal in the chromosomes. To advance in this topic, multicolor-FISH mapping of U1 snRNA and 5S rRNA genes was carried out revealing these two clusters with syntenic organization in a small st/a chromosome, being the 5S rDNA a large centromeric mark and U1 terminal in the long arm (Figure 4a). Moreover, clusters for 5S rDNA were also located in the centromeric region of the largest pair and in the interstitial position of two other st/a pairs (Figure 4a).

Considering that 5S rDNA FISH mapping generates stronger signals in he chromosomes compared to U1, multicolor-FISH using both 5S rDNA and the BAC marker of LG14 as probes was conducted revealing that LG14 does not correspond to to the chromosome carrying U1 (that is syntenic to the strongest 5S rDNA site) (Figure 4b). The BAC was terminally located (Figure 4b), while the 5S rDNA located in the proximal region of a different chromsome. The other signals corresponding to the 5S rRNA gene (interstitially located in two other st/a chromosomes and in the centromeric region of the largest pair) were not observed due the higher stringency used for BAC-FISH hybridization.

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Discussion

The chromosomal organization of U snRNA genes have been poorly explored in fish, and only in other six species, belonging to two distinct families, Batrachoididae and

Moronidae, the U2 snRNA genes were cytogenetically mapped (Merlo et al. 2010; Úbeda-

Manzanaro et al. 2010). Moreover in other fish species, Solea senegalensis some U snRNA genes linked to the 5S rDNA repetition were also mapped (Manchado et al. 2006). On the contrary to the high conservation of U1 chromosomal clusters among distantly related cichlid lineages, in Batrachoididae fish distinct scenario of organization for U2 snRNA genes was described, with sites (i) concentrated in one chromosome pair, (ii) dispersed through the genome or (iii) both concentrated and dispersed (Úbeda-Manzanaro et al. 2010). In other the U1 gene was mapped in several crustaceans, revealing more than one pair of cluster in each genome, besides its association with 5S rDNA repetition.

Apparently in cichlids the U1 snRNA gene has not suffered extensive changes and could be under purifying selection against spread or origin of multiple clusters, being conserved one pair of chromosomes bearing a large number of repetitions since the origin of the family prior to Gondwana landmass fragmentation [121-165 MYA] (Turner 2007). On the other hand, some small groups of U1 snRNA gene sequences not detectably by FISH occur at least in O. niloticus genome, as revealed by genomic screening. This indicates that this sequence presents capacity of movement in the genome, although the origins of new large clusters have been apparently hampered. Recently Marz et al. (2010) suggested that the snRNA genes behave like mobile elements in metazoan animals and that tandem organization for these genes are not conserved over long evolutionary time-scale. Our analysis of Nile tilapia genome indicated that these genes do not behave intrinsically like mobile elements, but their spreading is governed by transposition mediated by flanking transposable elements.

Distinct transposable elements are associated to the U1 snRNA genes in O. niloticus genome, !"#$%&'& 0+& and some of them presented ORFs, reinforcing the hypothesis of U1 snRNA mobility by activation of associated TEs. It is also reinforced by the similarity of flanking regions in the scaffolds U1_12 and U1_13, U1_9 and U1_11 for TEs content.

The variability related to specific chromosome position observed for the U1 snRNA cluster in the three distantly related cichlid subfamilies could be attributed to specific chromosome rearrangements along the evolutionary diversification of the group. According to Poletto et al. (2010) inversions and transpositions are examples of chromosomal rearrangements responsible for the karyotypic diversification in cichlids. These two types of rearrangements could be the main forces for the modification of U1 snRNA cluster location, mainly in the South American cichlids, that showed the highest variability for U1 snRNA cluster position. Although Etroplinae is considered a sister group of the remaining cichlids, the karyotype of the species analyzed in this work (Etroplus maculatus) has undergone extensive modifications if compared to the Perciformes basal karyotype (Poletto et al. 2010), being the position of U1 snRNA cluster changed along this diversification to interstitial position in one small chromosome. The terminal position of U1 snRNA genes could represent the basal condition before the cichlids diversification, leading in consideration its occurrence in distantly related lineages, like South American and African ones, and high frequency, although analysis of sister groups, like other Perciformes fish (Scianidae, Pomacentridae and

Haemulidae), are necessary to confirm this statement.

In comparison to other multigene families previously mapped in cichlids, like rRNA genes (Poletto et al. 2010; Nakajima et al. in preparation), the U1 snRNA clusters are more stable. It could reflect distinct evolutionary forces acting in the spreading and clustering of distinct multigene families in cichlid genomes. One example of the strong difference between spreading mechanism among multigene families in cichlid fish is observed in Haplochromis obliquidens that presents (i) intense multiplication of 5S rDNA sites distributed in 15 !"#$%&'& 0,& autosomal pairs, (ii) spreading of 18S rDNA to five autosomal chromosomes and B chromosomes, and (iii) conservation of only one autosomal pair bearing U1 snRNA cluster, not occurring also in the B chromosome of this species. Examples of distinct patterns of spreading/conservation of number of sites for distinct multigene families in the same genome were described in Acrididae grasshoppers (Cabrero and Camacho 2008; Cabrero et al. 2009;

Cabral-de-Mello et al. 2011a) and Scarabaeinae beetles (Cabral-de-Mello et al. 2011b).

Although the 5S rRNA and U1 snRNA genes present distinct diversification patterns of clusters organization, similar arrangement for these two sequences are observed in the Nile tilapia genome, as observed for 5S rDNA with the presence of large clusters and few dispersed repetitions, not revealed in FISH experiments (Martins et al. 2002).

In other groups some U snRNA genes are organized in the same arrangement, or they can be linked to other multigene families, for example 5S rRNA genes (Pelliccia et al.

2001; Barzotti et al. 2003; Manchado et al. 2006). In teleost fish a common pattern was described with one or two U1-U2 pairs and 2-6 tandem copies. In the Nile tilapia genome, considering the scaffold analyzed, none of these organization was observed, being the U1 snRNA genes flanked primarily by transposable elements. Linked organization for U snRNA genes was observed in the scaffold 70 that presented five copies of U2 and one copy of U5, but without specific pattern of organization, and none copy of 5S rDNA was observed.

The genomic analysis of Nile tilapia scaffolds with occurrence of U1 snRNA copies indicated that most part of U1 snRNA genes are located in the LG14. Although our analysis using physical chromosome mapping revealed a divergent organization with the occurrence of a distinctive cluster in a subtelo-acrocentric bivalent that does not correspond to LG14.

This discrepancy could be related to the repeated nature of this gene that makes difficult the correct identification and array of copies during the genome assembling. !"#$%&'& 0-&

Our results indicate distinct evolutionary patterns for multigene families in cichlid fish, with intense conservation for the number of chromosomal sites for the U1 snRNA gene, contrasting with the variability described for 18S rDNA (Poletto et al. 2010) and 5S rDNA

(Nakajima in preparation). The U1 snRNA gene mapping reinforce the more extensive variability of South American cichlid karyotypes in comparison to African ones, leading in consideration the higher variability for U1 snRNA cluster location. Moreover we suggest distinct patterns of genomic organization for snRNA in comparison to presented by Marz et al. (2010), adding information that at least the U1 snRNA do not behave like a TE, but it is flanked by TEs (at least in the Nile tilapia) that could act in its spreading in the genome.

Finally it is reinforced the importance of integrative analysis, including cytogenetic mapping and genomic analysis, in the study of genomic organization and evolution of repeated genes in animals. Further studies of other animal species with integrated view would contribute to our understanding of the structure, organization and evolution of U snRNA genes.

Acknowledgements

The authors are grateful to PC Venere for the field work assistance, J Mazzuchelli for assistance with BAC probes hybridization and to T Kocher for animal sample and critical review of the manuscript. This study was supported by Fundação de Amparo a Pesquisa do

Estado de São Paulo (FAPESP), Coordenadoria de Aperfeiçoamento de Pessoal de Nível

Superior (CAPES) and Conselho Nacional de Desenvolvimento Científico e Tecnológico

(CNPq) from Brazil.

References

As referencias deste tópico encontram-se reunidas no item Referências Bibliográficas ao final do relatório. !"#$%&'& 0.&

Tables

Table 1. Cichlid species analyzed, their origin, chromosomal characteristics and location of

U1 snRNA gene.

Subfamilies, major groups Origin 2n Karyotypic formulae U1 gene and species location Etroplinae Etroplus maculatus Petshop 46 18m/sm+18st/a+10micro 2st/a (p) Tilapiines Oreochromis aureus Tropical Aquaculture 44 2m/sm+42st/a 2st/a (t) Facility, UMD, USA Oreochromis niloticus Tietê river, SP, Brazil 44 2m/sm+42st/a 2st/a (t) Tilapia mariae Tropical Aquaculture 40 8m/sm+32st/a 2st/a (t) Facility, UMD, USA Tilapia mamfe Tropical Aquaculture 44 10m/sm+34st/a 2st/a (t) Facility, UMD, USA Hemichromines Hemichromis bimaculatus Petshop 44 4m/sm+40st/a 2st/a (t) moorii Petshop 44 14m/sm+30st/a 2st/a (t) Haplochromis obliquidens Petshop 44 12m/sm+32st/a, 1B 2st/a (t) Placidochromis electra Tropical Aquaculture 44 2st/a (t) Facility, UMD, USA Cichlinae Retroculini Retroculus lapidifer Araguaia river, MT, 48 48st/a 2st/a (t) Brazil Astronotini Astronotus ocellatus Araguaia river, MT, 48 12m/sm+36st/a 2m/sm (t) Brazil Cichlini Cichla kelberi Araguaia river, MT, 48 48st/a 2st/a (t) Brazil Geophagini Geophagus brasiliensis Tietê river, SP, Brazil 48 2m/sm+46st/a 2st/a (i) Geophagus proximus Araguaia river, MT, 48 4m/sm+44st/a 2st/a (p) Brazil Bitodoma cupido Araguaia river, MT, 48 4m/sm+44st/a 2st/a (t) Brazil Satanoperca jurupari Araguaia river, MT, 48 4m/sm+44st/a 2st/a (p) Brazil Cichlasomatini Aequidens tetramerus Araguaia river, MT, 48 12m/sm+36st/a 2st/a (t) Brazil Heroini Heros efasciatus Araguaia river, MT, 48 8m/sm+40st/a 2st/a (t) Brazil Mesonauta festivus Araguaia river, MT, 48 14m/sm+34st/a 2m/sm (p) Brazil !"#$%&'& 0/&

Table 2. Synthesis of genomic organization of U1, U3 and U5 and the flanking regions of U1 copies. Lighten gray boxes, U copies; Dark gray boxes, transposable elements; Black boxes, other sequences identified. *Indicate identity values; **Indicate similarities; a, megablast search; b, discontinuous megablast search.

Scaffold Ns % Length Statistics /LG Length bp (gap) Annotations Range bp E-value bp % 70/ 3,494,559 10.3 U1_1 2,913,532 - 2,913,439 3e-36 94 *95 U1_2 2,495,607 - 2,495,521 4e-32 87 *95

U1_3 2,494,843 - 2,494,757 1e-29 87 *94

U1_4 2,911,975 - 2,911,896 6e-28 80 *95

U1_5 2,868,873 - 2,868,919 5e-13 47 *95

U2_1 2,487,898 – 2,487,711 4e-85 188 *96 U2_2 2,915,915 – 2,915,728 9e-83 188 *95 U2_3 2,854,686 – 2,854,873 2e-80 188 *95 U2_4 2,505,989 – 2,505,883 1e-41 107 *95 U2_5 2,997,013 – 2,997,064 1e-20 52 *100 U5_8 2,998,944 – 2,999,005 3e-10 62 *88 hAT-N79_DR 2,913,210 - 2,913,151 - 60 **76 hAT-1_NV 2,494,216 - 2,494,110 - 107 **73 hAT-N21_DR 2,494,503 – 2,494,438 - 66 **76 aAcession number EF594315.1 2,494,113 - 2,494,249 5e-47 137 *93 aAcession number EF594311.1 2,913,151 – 2,913,366 9e-55 216 *85 207/ 1,225,683 6.3 U1_6 1,010,063 - 1,009,903 7e-34 161 *87 REX1-4_AFC 1,009,665 – 1,009,719 - 55 **83 95/ 2,766,223 8.3 U1_7 1,855,872 - 1,856,006 4e-32 135 *88 Helitron-2_Mad 1,885,867 – 1,885,718 - 150 **73 CR1-29_DR 1,856,081 - 1,856,139 - 59 **83 bAcession number AC236448.1 1,856,054 – 1,856,137 1e-16 85 *85 bAcession number AC236439.1 1,856,054 – 1,856,137 1e-16 85 *85 bAcession number BC097570.1 1,856,076 – 1,856,137 2e-09 62 *85 255/ 904,241 1,4 U1_8 843,695 - 843,534 6e-25 162 *84 358/ 471,205 12.6 U1_9 1 - 30 5e-19 30 *88 U1_10 9,793 - 9,723 9e-18 71 *91

U1_11 10,060 - 9,996 3e-14 65 *90

U1_12 4,995 - 4,953 5e-13 43 *97

L1-53_XT 10,622 – 10,701 - 80 **75 Tx1-3_XT 4,417 – 4,360 - 58 **72 Ron-1_ON 4,695 – 4,638 - 58 **74 Copia-20_CQ-I 5,010 – 4,948 - 63 **80 CASINA 272 - 341 - 70 **73 L1-53_XT 479 - 409 - 71 **73 !"#$%&'& 0(&

LINE1-25_SBi 639 - 595 - 45 **77 aAcession number CR713323.2 33-95 2e-17 63 *95 123/ 2,327,695 20.6 U1_13 2,319,428 - 2,319,386 5e-13 43 *97 L1-53_XT 2,318,904 – 2,318,628 - 277 **66 ROn-1_ON 2,319,104 – 2,319,047 - 58 **76 EnSpm-44_SBi 2,319,413 – 2,319,477 - 65 **72 82/ - - U2_6 635,379 – 635,563 6e-81 - *95 3404/ - - U2_7 1 – 176 5e-78 - *96 54/ - - U2_8 3,680,132 – 3,679,945 5e-78 - *94 1007/ - - U2_9 3,087 – 3,035 3e-21 - *100 - - U2_10 137 – 9 2e-16 - *83 - - U2_11 13,225 – 13,079 2e-15 - *82 108/ - - U2_12 391,507 – 391,472 4e_11 - *100 35/ - - U5_1 662,135 – 662,203 3e-26 - *96 - - U5_2 1,397,547 – 1,397,615 3e-26 - *97 - - U5_3 1,400,804 – 1,400,870 4e-25 - *97 - - U5_4 1398408 - 1398468 6e-24 - *98 - - U5_5 1,398,971 – 1,399,031 8e-05 - *85 15/ - - U5_6 74,869 – 74,935 4e-25 - *97 132/ - - U5_7 266,048 – 266,109 2e-24 - *98

!"#$%&'& 00&

Figures

Figure 1. Genomic organization of U1, U2 and U5 gene copies, and TEs in several scaffolds of O. niloticus genome. Dark blue, red and green triangle, snRNAs U gene copies; Pink symbols, TEs; Orange arrow, T. nigroviridis sequence; Lighten blue symbols, regions with potential protein-coding of TEs; Sca, scaffold. Comparisons of FR with green bar indicating the identity for each position is detailed in “a”, and overlapping between U1_12 and one TE id detailed in “b”. * indicates the number of nucleotides that were excluded for better organization of the figure (See additional file 11).

!"#$%&'& 01&

Figure 2. Alignments of U1 gene copies retrieved from O. niloticus genome database.

!"#$%&'& 1)&

Figure 3. Cytogenetic mapping of U1 snRNA gene (arrowheads) in Cichlidae species. Arrow indicates a B chromosome in Haplochromis obliquidens. Scale bar 5"m.

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Figure 4. Metaphasic spreads of O. niloticus showing the chromosome physical location of

(a) U1 snRNA (red) and 5S rRNA (green) genes, and (b) 5S rRNA gene (green) and CLDN13 gene of LG14 (red). Scale bar 5"m.

!"#$%&'& 1+&

Supplementary files

1 – FASTA sequences of U snRNA genes of Homo sapiens and blast results using these sequences as the queries against Tilapia_broad_v1 genome.

>Homo sapiens RNA, U1 small nuclear 1 (RNU1-1), small nuclear RNA (NR_004430) AUACUUACCUGGCAGGGGAGAUACCAUGAUCACGAAGGUGGUUUUCCCAGGGCGAGGCUUAUCCAUUGCACUCCGGAUGUGCUGACCCCUGCG AUUUCCCCAAAUGUGGGAAACUCGACUGCAUAAUUUGUGGUAGUGGGGGACUGCGUUCGCGCUUUCCCCUG Blastn Score E Sequences producing significant alignments: (bits) Value scaffold_70 155 3e-36 scaffold_207 147 7e-34 scaffold_95 141 4e-32 scaffold_255 117 6e-25 scaffold_358 98 5e-19 scaffold_123 78 5e-13 scaffold_15 42 0.028 scaffold_102 36 1.7 scaffold_1 36 1.7 scaffold_175 34 6.8 scaffold_140 34 6.8 scaffold_134 34 6.8 scaffold_99 34 6.8 scaffold_0 34 6.8

>Homo sapiens RNA, U2 small nuclear 1 (RNU2-1), small nuclear RNA (NR_002716.3) ATCGCTTCTCGGCCTTTTGGCTAAGATCAAGTGTAGTATCTGTTCTTATCAGTTTAATATCTGATACGTCCTCTATCCGAGGACAATATATTA AATGGATTTTTGGAGCAGGGAGATGGAATAGGAGCTTGCTCCGTCCACTCCACGCATCGACCTGGTATTGCAGTACCTCCAGGAACGGTGCAC CC Blastn Score E Sequences producing significant alignments: (bits) Value scaffold_70 317 4e-85 scaffold_82 303 6e-81 scaffold_3404 293 5e-78 scaffold_54 293 5e-78 scaffold_1007 105 3e-21 scaffold_108 72 4e-11 scaffold_73 40 0.13 scaffold_187 38 0.51 scaffold_175 38 0.51 scaffold_329 36 2.0 scaffold_266 36 2.0 scaffold_164 36 2.0 scaffold_157 36 2.0 scaffold_144 36 2.0 scaffold_136 36 2.0 scaffold_127 36 2.0 scaffold_75 36 2.0 scaffold_55 36 2.0 scaffold_24 36 2.0 scaffold_21 36 2.0 scaffold_7 36 2.0 scaffold_167 34 8.0 scaffold_160 34 8.0 scaffold_159 34 8.0 scaffold_121 34 8.0 scaffold_89 34 8.0 scaffold_81 34 8.0 scaffold_64 34 8.0 !"#$%&'& 1,& scaffold_57 34 8.0 scaffold_45 34 8.0 scaffold_32 34 8.0 scaffold_19 34 8.0 scaffold_13 34 8.0 scaffold_12 34 8.0 scaffold_10 34 8.0 scaffold_0 34 8.0

>Homo sapiens RNA, U5A small nuclear (RNU5A), small nuclear RNA (NR_002756.2) ATACTCTGGTTTCTCTTCAGATCGCATAAATCTTTCGCCTTTTACTAAAGATTTCCGTGGAGAGGAACAACTCTGAGTCTTAACCCAATTTTT TGAGGCCTTGCTTTGGCAAGGCTA Blastn Score E Sequences producing significant alignments: (bits) Value scaffold_33 121 3e-26 scaffold_15 117 4e-25 scaffold_132 115 2e-24 scaffold_70 68 3e-10 scaffold_270 36 1.2 scaffold_175 36 1.2 scaffold_475 34 4.6 scaffold_274 34 4.6 scaffold_253 34 4.6 scaffold_216 34 4.6 scaffold_157 34 4.6 scaffold_111 34 4.6 scaffold_109 34 4.6 scaffold_68 34 4.6 scaffold_65 34 4.6 scaffold_46 34 4.6 scaffold_26 34 4.6 scaffold_23 34 4.6 scaffold_8 34 4.6 scaffold_0 34 4.6

2 - FASTA sequences of putative U1 snRNA gene copies identified in Tilapia_broad_v1 genome using the U1 gene of Homo sapiens (NR_004430) as the query. Blue bases were included after blast search against NCBI. >U1_1_scaffold_70 CCATTGCACTCCGGTTGTGCTGACCCCTGCGAATTCCCCAAATGTGGGAATCTCGACTGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGC T >U1_2_scaffold_70 TGTGCTGACCCCTGCGAATTCCCCAAATGTGGGAATCTCGACTGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCTCTCCCCTG >U1_3_scaffold_70 TGTGCTGACCCCTGCGAATTCCCCAAATGTGGGAATCTCGACTGCATAATTTCTGGTAGTGGGGGACTGCATTCGCGCTCTCCCCTG >U1_4_scaffold_70 ACCCCTGCGAATTCCCCAAATGTGGGAATCTCGACTGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCTCTCCCCTG >U1_5_scaffold_70 ACTGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCTCTCCCCTG >U1_6_scaffold_207 ATACTTACCTGGCAGGAGAGATACTATGATCAAGAAGGTGGTTCTCTCAGGCCGAGGCTCAGCCATTGCACTCTGGCTTTGCTGATAGCCTGC GAATTCCCCAAATGTGGGAATCTCGACTGCATAATTTCTGATAGTGGGGACTGCGTTCGCGCTCTCCC >U1_7_scaffold_95 ATCATGAAGGTGGTTCATCCAGGGCGAGGCTCAGCCATTGCACTGCGGTTGTGCTGACCCCTGTGAATTCCCCAAATGCGGGTATCTCAACTG CATAATTTGTGGTAGTGGGGGACTGCGTTCGTGCTCTCCCCT >U1_8_scaffold_255 ATACTTACCTGGCAGGGATGATACCATGATCATGAAGGTGGTTCGTCCAGAGTGAGGCTTTGCCATTGCACACAGGCAGTTCTGACCTCTGTG AATTCCTCAAATGTGGGAATCTCAACTGCACAATTTATGGTAGTGGGGACTGCGTACGCGCTTTCCCCT >U1_9_scaffold_358 TGCGGGAATCTCAACTGCATAATTTGTGGT >U1_9_long_scaffold_358 !"#$%&'& 1-&

CCCAGGGCGAGGCTCAGCCATTGCACTGCGGTTGTGCTGACCCCTGTGAATTCCCCACATGCGGGAATCTCAACTGCATAATTTGTGGT >U1_10_scaffold_358 TGTGCTGACCCCTGTGAATTCCCCACATGCGGGAATCTCAACTGCATAATTTGTGGTAGTGGGGGACTGCG >U1_11_scaffold_358 CCCCTGTGAATTCCCCAAATGCAGGAATCTCAACTGCATAATTTGTGGTAGTGGGGGACTGCGTT >U1_12_scaffold_358 ATACTTACCTGGCAGGGGCGATACCATGATCACGAAGGTGGTT >U1_13_scaffold_123 ATACTTACCTGGCAGGGGAGACACCATGATCACGAAGGTGGTT

3 - Alignment of putative U1 gene copies of O. niloticus.

1 10 20 30 40 50 60 | | | | | | | human U1 (NR_004430) AUACUUACCUGGCAGGGGAGAUACCAUGAUCACGAAGGUGGUUUUCCCAGGGCGAGGCUU U1_8 ATACTTACCTGGCAGGGATGATACCATGATCATGAAGGTGGTTCGTCCAGAGTGAGGCTT U1_6 ATACTTACCTGGCAGGAGAGATACTATGATCAAGAAGGTGGTTCTCTCAGGCCGAGGCTC U1_13 ATACTTACCTGGCAGGGGAGACACCATGATCACGAAGGTGGTT------U1_12 ATACTTACCTGGCAGGGGCGATACCATGATCACGAAGGTGGTT------U1_7 ------ATCATGAAGGTGGTTCATCCAGGGCGAGGCTC U1_9 ------GGTTCGCCCAGGGCGAGGCTC U1_1 ------U1_2 ------U1_10 ------U1_3 ------U1_4 ------U1_11 ------U1_5 ------

human U1 (NR_004430) AUCCAUUGCACUCCGGAUGUGCUGAC-CCCUGCGAUUUCCCCAAAUGUGGGAAACUCGAC U1_8 TGCCATTGCACACAGGCAGTTCTGAC-CTCTGTGAATTCCTCAAATGTGGGAATCTCAAC U1_6 AGCCATTGCACTCTGGCTTTGCTGATAGCCTGCGAATTCCCCAAATGTGGGAATCTCGAC U1_13 ------U1_12 ------U1_7 AGCCATTGCACTGCGGTTGTGCTGAC-CCCTGTGAATTCCCCAAATGCGGGTATCTCAAC U1_9 AGCCATTGCACTGCGGTTGTGCTGAC-CCCTGTGAATTCCCCACATGCGGGAATCTCAAC U1_1 --CCATTGCACTCCGGTTGTGCTGAC-CCCTGCGAATTCCCCAAATGTGGGAATCTCGAC U1_2 ------TGTGCTGAC-CCCTGCGAATTCCCCAAATGTGGGAATCTCGAC U1_10 ------TGTGCTGAC-CCCTGTGAATTCCCCACATGCGGGAATCTCAAC U1_3 ------TGTGCTGAC-CCCTGCGAATTCCCCAAATGTGGGAATCTCGAC U1_4 ------AC-CCCTGCGAATTCCCCAAATGTGGGAATCTCGAC U1_11 ------C-CCCTGTGAATTCCCCAAATGCAGGAATCTCAAC U1_5 ------AC

human U1 (NR_004430) UGCAUAAUUUGUGGUAGUGGGGGACUGCGUUCGCGCUUUCCCCUG U1_8 TGCACAATTTATGGTAGT-GGGGACTGCGTACGCGCTTTCCCCT- U1_6 TGCATAATTTCTGATAGT-GGGGACTGCGTTCGCGCTCTCCC--- U1_13 ------U1_12 ------U1_7 TGCATAATTTGTGGTAGTGGGGGACTGCGTTCGTGCTCTCCCCT- U1_9 TGCATAATTTGTGGT------U1_1 TGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCT------U1_2 TGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCTCTCCCCTG U1_10 TGCATAATTTGTGGTAGTGGGGGACTGCG------U1_3 TGCATAATTTCTGGTAGTGGGGGACTGCATTCGCGCTCTCCCCTG U1_4 TGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCTCTCCCCTG U1_11 TGCATAATTTGTGGTAGTGGGGGACTGCGTT------U1_5 TGCATAATTTCTGGTAGTGGGGGACTGCGTTCGCGCTCTCCCCTG

4 - FASTA sequences of putative U1 snRNA gene copies identified in Tilapia_broad_v1 genome. Blue bases were included after alignment of the flanking regions and the blast results using these sequences as the queries against NCBI. !"#$%&'& 1.&

Query= U1_1_scaffold_70 Megablast Score E Sequences producing significant alignments: (Bits) Value gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 169 3e-39 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 169 3e-39 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 169 3e-39 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 163 1e-37 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 158 6e-36 emb|X00549.1| Xenopus laevis gene for U1snRNA 158 6e-36 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 156 2e-35 gb|K02698.1|XELUR1D3 X. laevis U1 small nuclear RNA, clone U1cD3 154 8e-35 emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 152 3e-34 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 152 3e-34 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 152 3e-34 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 152 3e-34 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 152 3e-34 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 152 3e-34 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 152 3e-34 emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 152 3e-34 emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 152 3e-34 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 152 3e-34 emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 152 3e-34 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 152 3e-34 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 152 3e-34 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 152 3e-34 emb|X02585.1| Xenopus laevis tandemly arranged embryonic U1 s... 152 3e-34 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 147 1e-32 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 147 1e-32 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 147 1e-32 gb|K02699.1|XELUR1D4 X. laevis U1 small nuclear RNA, clone U1cD4 145 5e-32 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 141 6e-31 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 141 6e-31 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 141 6e-31 gb|K02696.1|XELUR1D1 X. laevis U1 small nuclear RNA, clone U1cD1 141 6e-31 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 139 2e-30 emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 135 3e-29 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 135 3e-29 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 135 3e-29 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 135 3e-29 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 135 3e-29 emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 135 3e-29 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 135 3e-29 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 130 1e-27 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 130 1e-27 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 130 1e-27 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 130 1e-27 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 130 1e-27 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 130 1e-27 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 130 1e-27 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 130 1e-27 emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 128 5e-27 emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 128 5e-27 emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 126 2e-26 emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 126 2e-26 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 124 6e-26 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 124 6e-26 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 121 8e-25 emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 121 8e-25 emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 121 8e-25 gb|M59827.1|AMTUGSNRNA A.mexicanum AmU1 snRNA gene, complete ... 119 3e-24 emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 117 1e-23 ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 111 5e-22 gb|AC110819.5| Mus musculus BAC clone RP23-239K2 from chromos... 104 8e-20 !"#$%&'& 1/& emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 104 8e-20 emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 104 8e-20 gb|AC135293.3| Mus musculus BAC clone RP23-206K5 from 6, comp... 104 8e-20 emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 99.0 4e-18 emb|CU469093.5| Zebrafish DNA sequence from clone CH73-211P17... 82.4 4e-13

Query= U1_2_scaffold_70 Megablast Score E Sequences producing significant alignments: (Bits) Value gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 161 4e-37 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 161 4e-37 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 161 4e-37 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 161 4e-37 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 158 5e-36 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 158 5e-36 emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 156 2e-35 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 156 2e-35 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 156 2e-35 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 156 2e-35 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 156 2e-35 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 156 2e-35 emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 156 2e-35 emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 156 2e-35 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 156 2e-35 emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 156 2e-35 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 156 2e-35 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 156 2e-35 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 156 2e-35 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 150 9e-34 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 150 9e-34 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 150 9e-34 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 150 9e-34 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 145 4e-32 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 145 4e-32 emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 143 1e-31 emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 143 1e-31 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 143 1e-31 emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 141 5e-31 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 139 2e-30 emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 139 2e-30 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 139 2e-30 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 139 2e-30 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 139 2e-30 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 139 2e-30 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 139 2e-30 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 139 2e-30 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 139 2e-30 gb|AC164871.3| Sorex araneus, clone XX-26497957E19, complete ... 139 2e-30 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 139 2e-30 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 139 2e-30 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 139 2e-30 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 139 2e-30 emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 139 2e-30 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 139 2e-30 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 139 2e-30 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 139 2e-30 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 139 2e-30 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 139 2e-30 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 139 2e-30 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 139 2e-30 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 139 2e-30 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 139 2e-30 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 139 2e-30 !"#$%&'& 1(& gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 139 2e-30 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 139 2e-30 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 139 2e-30 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 139 2e-30 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 139 2e-30 gb|K02698.1|XELUR1D3 X. laevis U1 small nuclear RNA, clone U1cD3 139 2e-30 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 139 2e-30 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 139 2e-30 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 139 2e-30 emb|X02585.1| Xenopus laevis tandemly arranged embryonic U1 s... 139 2e-30 emb|X00549.1| Xenopus laevis gene for U1snRNA 139 2e-30 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 139 2e-30 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 139 2e-30 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 139 2e-30 emb|V00444.1| Gallus gallus nuclear U1A snRNA 139 2e-30 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 139 2e-30 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 139 2e-30 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 139 2e-30 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 139 2e-30 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 139 2e-30 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 139 2e-30 emb|V01268.1| Rattus norvegicus U1A snRNA 139 2e-30 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 137 7e-30 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 135 2e-29 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 135 2e-29 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 135 2e-29 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 135 2e-29 emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 135 2e-29 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 135 2e-29 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 135 2e-29 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 135 2e-29 emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 135 2e-29 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 135 2e-29 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 134 9e-29 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 134 9e-29 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 134 9e-29 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 132 3e-28 gb|K02699.1|XELUR1D4 X. laevis U1 small nuclear RNA, clone U1cD4 132 3e-28 gb|K02696.1|XELUR1D1 X. laevis U1 small nuclear RNA, clone U1cD1 132 3e-28 emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 130 1e-27 emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 130 1e-27 emb|Y00131.1| Murine U1b-2 gene for U1 small nuclear RNA 126 1e-26 emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 119 2e-24 emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 119 2e-24 gb|M59827.1|AMTUGSNRNA A.mexicanum AmU1 snRNA gene, complete ... 119 2e-24 emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 113 1e-22

Query= U1_3_scaffold_70 Megablast Score E Sequences producing significant alignments: (Bits) Value gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 156 2e-35 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 156 2e-35 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 156 2e-35 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 156 2e-35 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 152 2e-34 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 152 2e-34 emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 150 9e-34 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 150 9e-34 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 150 9e-34 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 150 9e-34 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 150 9e-34 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 150 9e-34 emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 150 9e-34 !"#$%&'& 10& emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 150 9e-34 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 150 9e-34 emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 150 9e-34 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 150 9e-34 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 150 9e-34 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 150 9e-34 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 145 4e-32 emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 145 4e-32 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 145 4e-32 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 145 4e-32 emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 145 4e-32 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 145 4e-32 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 139 2e-30 emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 137 7e-30 emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 137 7e-30 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 137 7e-30 emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 135 2e-29 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 134 9e-29 gb|K02698.1|XELUR1D3 X. laevis U1 small nuclear RNA, clone U1cD3 134 9e-29 emb|X02585.1| Xenopus laevis tandemly arranged embryonic U1 s... 134 9e-29 emb|X00549.1| Xenopus laevis gene for U1snRNA 134 9e-29 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 130 1e-27 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 130 1e-27 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 130 1e-27 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 130 1e-27 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 130 1e-27 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 130 1e-27 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 130 1e-27 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 130 1e-27 emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 130 1e-27 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 130 1e-27 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 130 1e-27 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 130 1e-27 emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 130 1e-27 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 130 1e-27 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 130 1e-27 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 130 1e-27 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 126 1e-26 gb|K02699.1|XELUR1D4 X. laevis U1 small nuclear RNA, clone U1cD4 126 1e-26 gb|K02696.1|XELUR1D1 X. laevis U1 small nuclear RNA, clone U1cD1 126 1e-26 emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 124 5e-26 emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 124 5e-26 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 124 5e-26 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 124 5e-26 emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 113 1e-22 emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 113 1e-22 emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 108 5e-21 ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 100 9e-19 gb|AC110819.5| Mus musculus BAC clone RP23-239K2 from chromos... 89.8 2e-15 gb|AC135293.3| Mus musculus BAC clone RP23-206K5 from 6, comp... 89.8 2e-15

Query= U1_4_scaffold_70 Megablast Score E Sequences producing significant alignments: (Bits) Value emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 148 3e-33 gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 148 3e-33 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 148 3e-33 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 148 3e-33 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 148 3e-33 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 148 3e-33 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 148 3e-33 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 148 3e-33 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 148 3e-33 !"#$%&'& 11& emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 148 3e-33 emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 148 3e-33 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 148 3e-33 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 148 3e-33 emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 148 3e-33 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 148 3e-33 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 148 3e-33 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 148 3e-33 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 148 3e-33 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 148 3e-33 emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 143 1e-31 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 143 1e-31 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 143 1e-31 emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 143 1e-31 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 143 1e-31 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 143 1e-31 emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 141 5e-31 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 137 6e-30 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 135 2e-29 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 135 2e-29 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 135 2e-29 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 135 2e-29 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 135 2e-29 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 135 2e-29 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 135 2e-29 emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 135 2e-29 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 135 2e-29 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 135 2e-29 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 135 2e-29 emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 135 2e-29 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 135 2e-29 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 135 2e-29 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 135 2e-29 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 135 2e-29 emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 132 3e-28 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 132 3e-28 gb|AC164871.3| Sorex araneus, clone XX-26497957E19, complete ... 132 3e-28 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 132 3e-28 emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 132 3e-28 emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 130 1e-27 emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 130 1e-27 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 130 1e-27 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 130 1e-27 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 126 1e-26 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 126 1e-26 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 126 1e-26 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 126 1e-26 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 126 1e-26 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 126 1e-26 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 126 1e-26 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 126 1e-26 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 126 1e-26 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 126 1e-26 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 126 1e-26 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 126 1e-26 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 126 1e-26 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 126 1e-26 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 126 1e-26 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 126 1e-26 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 126 1e-26 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 126 1e-26 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 126 1e-26 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 126 1e-26 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 126 1e-26 gb|K02698.1|XELUR1D3 X. laevis U1 small nuclear RNA, clone U1cD3 126 1e-26 !"#$%&'& *))& gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 126 1e-26 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 126 1e-26 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 126 1e-26 emb|X02585.1| Xenopus laevis tandemly arranged embryonic U1 s... 126 1e-26 emb|X00549.1| Xenopus laevis gene for U1snRNA 126 1e-26 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 126 1e-26 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 126 1e-26 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 126 1e-26 emb|V00444.1| Gallus gallus nuclear U1A snRNA 126 1e-26 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 126 1e-26 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 126 1e-26 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 126 1e-26 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 126 1e-26 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 126 1e-26 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 126 1e-26 emb|V01268.1| Rattus norvegicus U1A snRNA 126 1e-26 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 124 5e-26 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 121 6e-25 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 121 6e-25 gb|K02699.1|XELUR1D4 X. laevis U1 small nuclear RNA, clone U1cD4 121 6e-25 gb|K02696.1|XELUR1D1 X. laevis U1 small nuclear RNA, clone U1cD1 121 6e-25 emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 119 2e-24 emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 119 2e-24 emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 113 1e-22 emb|Y00131.1| Murine U1b-2 gene for U1 small nuclear RNA 113 1e-22 emb|CU481774.5| Zebrafish DNA sequence from clone CH1073-214B... 111 4e-22

Query= U1_5_scaffold_70 Megablast

Score E Sequences producing significant alignments: (Bits) Value emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 93.7 6e-17 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 93.7 6e-17 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 93.7 6e-17 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 93.7 6e-17 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 93.7 6e-17 emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 93.7 6e-17 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 93.7 6e-17 emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 93.7 6e-17 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 93.7 6e-17 gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 93.7 6e-17 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 93.7 6e-17 emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 93.7 6e-17 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 93.7 6e-17 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 93.7 6e-17 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 93.7 6e-17 emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 93.7 6e-17 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 93.7 6e-17 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 93.7 6e-17 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 93.7 6e-17 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 93.7 6e-17 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 93.7 6e-17 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 93.7 6e-17 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 93.7 6e-17 emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 93.7 6e-17 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 93.7 6e-17 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 93.7 6e-17 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 93.7 6e-17 emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 93.7 6e-17 emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 93.7 6e-17 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 93.7 6e-17 emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 93.7 6e-17 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 93.7 6e-17 !"#$%&'& *)*& emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 93.7 6e-17 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 93.7 6e-17 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 93.7 6e-17 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 93.7 6e-17 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 93.7 6e-17 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 93.7 6e-17 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 93.7 6e-17 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 93.7 6e-17 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 93.7 6e-17 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 93.7 6e-17 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 93.7 6e-17 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 93.7 6e-17 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 85.7 2e-14 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 85.7 2e-14 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 85.7 2e-14 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 85.7 2e-14 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 85.7 2e-14 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 85.7 2e-14 gb|AC164871.3| Sorex araneus, clone XX-26497957E19, complete ... 85.7 2e-14 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 85.7 2e-14 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 85.7 2e-14 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 85.7 2e-14 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 85.7 2e-14 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 85.7 2e-14 emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 85.7 2e-14 emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 85.7 2e-14 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 85.7 2e-14 emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 85.7 2e-14 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 85.7 2e-14 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 85.7 2e-14 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 85.7 2e-14 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 85.7 2e-14 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 85.7 2e-14 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 85.7 2e-14 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 85.7 2e-14 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 85.7 2e-14 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 85.7 2e-14 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 85.7 2e-14 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 85.7 2e-14 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 85.7 2e-14 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 85.7 2e-14 gb|K02699.1|XELUR1D4 X. laevis U1 small nuclear RNA, clone U1cD4 85.7 2e-14 gb|K02698.1|XELUR1D3 X. laevis U1 small nuclear RNA, clone U1cD3 85.7 2e-14 gb|K02696.1|XELUR1D1 X. laevis U1 small nuclear RNA, clone U1cD1 85.7 2e-14 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 85.7 2e-14 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 85.7 2e-14 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 85.7 2e-14 emb|X02585.1| Xenopus laevis tandemly arranged embryonic U1 s... 85.7 2e-14 emb|X00549.1| Xenopus laevis gene for U1snRNA 85.7 2e-14 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 85.7 2e-14 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 85.7 2e-14 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 85.7 2e-14 emb|V00444.1| Gallus gallus nuclear U1A snRNA 85.7 2e-14 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 85.7 2e-14 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 85.7 2e-14 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 85.7 2e-14 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 85.7 2e-14 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 85.7 2e-14 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 85.7 2e-14 emb|V01268.1| Rattus norvegicus U1A snRNA 85.7 2e-14 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 83.8 6e-14 emb|CU469093.5| Zebrafish DNA sequence from clone CH73-211P17... 83.8 6e-14 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 79.8 9e-13 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 77.8 4e-12 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 77.8 4e-12 !"#$%&'& *)+& pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 77.8 4e-12 emb|FP326720.5| Human DNA sequence from clone WI2-3290K16 on ... 77.8 4e-12 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 77.8 4e-12

Query= U1_6_scaffold_207 Megablast

Score E Sequences producing significant alignments: (Bits) Value emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 215 7e-53 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 215 7e-53 emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 209 3e-51 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 209 3e-51 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 209 3e-51 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 209 3e-51 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 209 3e-51 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 209 3e-51 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 209 3e-51 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 209 3e-51 emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 209 3e-51 emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 209 3e-51 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 209 3e-51 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 209 3e-51 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 209 3e-51 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 209 3e-51 emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 207 1e-50 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 204 2e-49 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 204 2e-49 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 204 2e-49 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 204 2e-49 gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 198 7e-48 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 198 7e-48 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 198 7e-48 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 182 7e-43 ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 167 2e-38 emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 161 9e-37 emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 161 9e-37 emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 122 4e-25 emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 122 4e-25 emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 122 4e-25 emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 119 6e-24 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 117 2e-23 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 117 2e-23 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 117 2e-23 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 117 2e-23 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 117 2e-23 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 117 2e-23 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 117 2e-23 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 117 2e-23 emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 117 2e-23 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 117 2e-23 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 117 2e-23 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 117 2e-23 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 117 2e-23 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 117 2e-23 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 117 2e-23 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 117 2e-23 emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 111 9e-22 emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 111 9e-22 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 111 9e-22 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 111 9e-22 emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 106 4e-20 emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 106 4e-20 emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 100 2e-18

!"#$%&'& *),&

Query= U1_7_scaffold_95 Megablast

Score E Sequences producing significant alignments: (Bits) Value emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 200 2e-48 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 178 7e-42 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 178 7e-42 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 178 7e-42 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 178 7e-42 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 178 7e-42 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 178 7e-42 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 172 3e-40 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 172 3e-40 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 172 3e-40 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 172 3e-40 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 172 3e-40 gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 172 3e-40 gb|AC134906.3| Mus musculus BAC clone RP23-361K7 from chromos... 172 3e-40 gb|AC121940.3| Mus musculus BAC clone RP24-209B21 from chromo... 172 3e-40 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 172 3e-40 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 172 3e-40 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 172 3e-40 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 172 3e-40 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 172 3e-40 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 172 3e-40 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 172 3e-40 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 172 3e-40 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 172 3e-40 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 172 3e-40 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 172 3e-40 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 172 3e-40 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 172 3e-40 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 172 3e-40 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 172 3e-40 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 172 3e-40 emb|V01268.1| Rattus norvegicus U1A snRNA 172 3e-40 gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 167 2e-38 gb|AC210639.3| Macaca mulatta BAC CH250-534M21 (Children's Ho... 167 2e-38 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 167 2e-38 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 167 2e-38 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 167 2e-38 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 167 2e-38 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 167 2e-38 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 167 2e-38 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 167 2e-38 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 167 2e-38 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 163 2e-37 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 161 7e-37 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 161 7e-37 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 161 7e-37 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 161 7e-37 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 161 7e-37 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 161 7e-37 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 161 7e-37 gb|AC240619.1| Homo sapiens FOSMID clone ABC24-417K8 from chr... 161 7e-37 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 161 7e-37 gb|FJ916034.1| Macaca mulatta U1-3 snRNA gene, complete sequence 161 7e-37 emb|FP326720.5| Human DNA sequence from clone WI2-3290K16 on ... 161 7e-37 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 161 7e-37 ref|NR_004424.2| Homo sapiens RNA, U1 small nuclear 7 (RNU1-7... 161 7e-37 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 161 7e-37 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 161 7e-37 dbj|AK299482.1| Homo sapiens cDNA FLJ60842 complete cds, high... 161 7e-37 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 161 7e-37 !"#$%&'& *)-& ref|NR_004427.1| Homo sapiens RNA, U1 small nuclear 2 (RNU1-2... 161 7e-37 ref|NR_004421.1| Homo sapiens RNA, U1 small nuclear 4 (RNU1-4... 161 7e-37 ref|NR_004408.1| Homo sapiens RNA, U1 small nuclear 3 (RNU1-3... 161 7e-37 ref|NR_004400.1| Homo sapiens RNA, U1 small nuclear 5 (RNU1-5... 161 7e-37 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 161 7e-37 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 161 7e-37 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 161 7e-37 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 161 7e-37 gb|EU007908.1| Mus musculus apolipoprotein A-II (Apoa2) gene,... 161 7e-37 gb|AC193932.3| Pan troglodytes BAC clone CH251-252B23 from ch... 161 7e-37 gb|AC193203.3| Pan troglodytes BAC clone CH251-709J5 from chr... 161 7e-37 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 161 7e-37 dbj|AB170793.1| Macaca fascicularis brain cDNA clone: QorA-10... 161 7e-37 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 161 7e-37 dbj|AK233498.1| Sus scrofa mRNA, clone:LVRM10159F12, expresse... 161 7e-37 dbj|AK239443.1| Sus scrofa mRNA, clone:THY010104B09, expresse... 161 7e-37 dbj|AK235935.1| Sus scrofa mRNA, clone:OVRM10127B11, expresse... 161 7e-37 dbj|AK231691.1| Sus scrofa mRNA, clone:LNG010009A02, expresse... 161 7e-37 dbj|AK027791.1| Homo sapiens cDNA FLJ14885 fis, clone PLACE10... 161 7e-37 emb|BX284668.4| Human DNA sequence from clone RP11-108M9 on c... 161 7e-37 emb|AL356957.27| Human DNA sequence from clone RP11-403I13 on... 161 7e-37 emb|AL137798.8| Human DNA sequence from clone RP5-1182A14 on ... 161 7e-37 emb|AL137802.7| Human DNA sequence from clone RP4-798A10 on c... 161 7e-37 emb|AL021920.1| Human DNA sequence from clone RP1-163M9 on ch... 161 7e-37 gb|AC117796.12| Mus musculus chromosome 1, clone RP24-554P6, ... 161 7e-37 gb|AC115959.17| Mus musculus chromosome 1, clone RP24-65D16, ... 161 7e-37 emb|AL445363.7| Human chromosome 14 DNA sequence BAC R-671J11... 161 7e-37 gb|J00318.1|HUMUG1 Human U1 small nuclear RNA (snRNA) gene HU1-1 161 7e-37 gb|M28013.1|HUMSNU1C21 Human U1 small nuclear RNA gene, clone... 161 7e-37 gb|M28012.1|HUMSNU1C1 Human U1 small nuclear RNA gene, clone ... 161 7e-37 gb|M14387.1|HUMRUN1C2 Human U1 small nuclear RNA gene, clone ... 161 7e-37 gb|K02697.1|XELUR1D2 X. laevis U1 small nuclear RNA, clone U1cD2 161 7e-37 gb|K00788.1|HUMUR1A Human U1A small nuclear RNA 161 7e-37 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 161 7e-37 ref|NR_004430.2| Homo sapiens RNA, U1 small nuclear 1 (RNU1-1... 161 7e-37 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 161 7e-37 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 161 7e-37 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 161 7e-37 emb|V00444.1| Gallus gallus nuclear U1A snRNA 161 7e-37 emb|V00591.1| Homo sapiens U1 snRNA gene 161 7e-37

Query= U1_8_scaffold_255 Discontinuous_megablast Score E Sequences producing significant alignments: (Bits) Value emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 192 5e-46 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 192 5e-46 emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 187 2e-44 emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 187 2e-44 emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 187 2e-44 emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 187 2e-44 emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 187 2e-44 emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 187 2e-44 emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 187 2e-44 emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 187 2e-44 emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 187 2e-44 emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 187 2e-44 emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 187 2e-44 emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 187 2e-44 emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 185 8e-44 gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 183 3e-43 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 183 3e-43 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 183 3e-43 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 181 1e-42 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 181 1e-42 !"#$%&'& *).& emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 181 1e-42 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 181 1e-42 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 178 1e-41 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 178 1e-41 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 178 1e-41 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 178 1e-41 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 178 1e-41 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 178 1e-41 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 178 1e-41 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 178 1e-41 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 178 1e-41 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 178 1e-41 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 178 1e-41 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 178 1e-41 gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 178 1e-41 gb|AC091542.3| Felis catus clone RP86-141L11, complete sequence 178 1e-41 emb|BX537254.7| Human DNA sequence from clone RP6-74O6 on chr... 178 1e-41 emb|AL356004.9| Human DNA sequence from clone RP11-94I2 on ch... 178 1e-41 emb|AL356957.27| Human DNA sequence from clone RP11-403I13 on... 178 1e-41 emb|AL137802.7| Human DNA sequence from clone RP4-798A10 on c... 178 1e-41 emb|AL445363.7| Human chromosome 14 DNA sequence BAC R-671J11... 178 1e-41 gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 176 4e-41 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 176 4e-41 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 176 4e-41 emb|FP326720.5| Human DNA sequence from clone WI2-3290K16 on ... 174 1e-40 emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 174 1e-40 emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 174 1e-40 emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 174 1e-40 gb|AC183688.2| Pan troglodytes BAC clone CH251-6F11 from chro... 174 1e-40 emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 174 1e-40 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 170 2e-39 emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 170 2e-39 emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 168 6e-39 emb|BX927193.28| Zebrafish DNA sequence from clone DKEY-109M8... 168 6e-39 emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 168 6e-39 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 168 6e-39 emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 168 6e-39 gb|AC091509.3| Felis catus clone RP86-468O8, complete sequence 168 6e-39 emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 168 6e-39 emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 168 6e-39 emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 168 6e-39 emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 168 6e-39 emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 168 6e-39 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 168 6e-39 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 168 6e-39 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 168 6e-39 gb|AC242281.4| Homo sapiens FOSMID clone ABC11-47167400N22 fr... 165 7e-38 gb|AC164871.3| Sorex araneus, clone XX-26497957E19, complete ... 165 7e-38 emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 165 7e-38 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 165 7e-38 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 165 7e-38 emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 165 7e-38 gb|AC104136.5| Homo sapiens BAC clone RP11-782E2 from 4, comp... 165 7e-38 emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 165 7e-38 emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 165 7e-38 emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 165 7e-38 emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 159 3e-36 emb|CU469093.5| Zebrafish DNA sequence from clone CH73-211P17... 159 3e-36 emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 159 3e-36 emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 159 3e-36 gb|AC004918.1| Homo sapiens PAC clone RP5-894A10 from 7, comp... 158 1e-35 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 158 1e-35 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 158 1e-35 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 158 1e-35 ref|NG_001259.2| Homo sapiens RNA, U1 small nuclear 10, pseud... 156 4e-35 !"#$%&'& *)/& gb|AC157815.9| Mus musculus chromosome 3, clone RP24-175G5, c... 156 4e-35 emb|AL592207.9| Human DNA sequence from clone RP11-495P10 on ... 156 4e-35 gb|AC141209.11| Mus musculus chromosome 3, clone RP23-199M5, ... 156 4e-35 emb|BX284650.8| Human DNA sequence from clone RP6-206I17 on c... 156 4e-35 gb|M25188.1|HUMUG14PS Human class I small nuclear RNA U1 pseu... 156 4e-35 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 154 1e-34 ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 152 5e-34 gb|AC187608.3| Pan troglodytes BAC clone CH251-687H5 from chr... 152 5e-34 gb|AC134906.3| Mus musculus BAC clone RP23-361K7 from chromos... 150 2e-33 gb|AC121940.3| Mus musculus BAC clone RP24-209B21 from chromo... 150 2e-33 gb|AC023202.8| Homo sapiens chromosome 8, clone RP11-203E8, c... 149 6e-33 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 149 6e-33 ref|NG_001264.2| Homo sapiens RNA, U1 small nuclear 11, pseud... 147 2e-32 gb|AC090888.4| Homo sapiens chromosome 15 clone CTD-2014N11 m... 147 2e-32 gb|AC091117.5| Homo sapiens chromosome 15 clone RP11-109D20 m... 147 2e-32

Query= U1_9_scaffold_358 Megablast Score E Sequences producing significant alignments: (Bits) Value gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 52.0 8e-05 gb|AC090888.4| Homo sapiens chromosome 15 clone CTD-2014N11 m... 52.0 8e-05 gb|AC091117.5| Homo sapiens chromosome 15 clone RP11-109D20 m... 52.0 8e-05 gb|AC214851.3| Pan troglodytes BAC clone CH251-640N3 from chr... 46.1 0.005 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 46.1 0.005 gb|AC186178.4| Pan troglodytes BAC clone CH251-692L14 from ch... 46.1 0.005 gb|AC009244.25| Homo sapiens chromosome 7 clone RP11-305M3, c... 46.1 0.005 gb|AC104136.5| Homo sapiens BAC clone RP11-782E2 from 4, comp... 46.1 0.005 gb|AC093900.3| Homo sapiens BAC clone RP11-730E1 from 4, comp... 46.1 0.005 gb|AC147282.3| Pan troglodytes BAC clone RP43-86L11 from chro... 46.1 0.005 gb|AC069141.4| Mus musculus strain C57BL6/J chromosome 6 clon... 46.1 0.005 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 46.1 0.005 ref|NR_004413.2| Mus musculus U1b6 small nuclear RNA (Rnu1b6)... 44.1 0.019 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 44.1 0.019 emb|FQ225205.1| Rattus norvegicus TL0AEA54YM12 mRNA sequence 44.1 0.019 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 44.1 0.019 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 44.1 0.019 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 44.1 0.019 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 44.1 0.019 gb|EU007908.1| Mus musculus apolipoprotein A-II (Apoa2) gene,... 44.1 0.019 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 44.1 0.019 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 44.1 0.019 gb|AC134906.3| Mus musculus BAC clone RP23-361K7 from chromos... 44.1 0.019 gb|AC121940.3| Mus musculus BAC clone RP24-209B21 from chromo... 44.1 0.019 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 44.1 0.019 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 44.1 0.019 gb|AC098705.2| Mus musculus BAC clone RP23-1B19 from 3, compl... 44.1 0.019 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 44.1 0.019 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 44.1 0.019 gb|AC162946.4| Mus musculus BAC clone RP23-38M11 from chromos... 44.1 0.019 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 44.1 0.019 gb|AC120778.2| Homo sapiens chromosome 15 clone CTD-2163N2 ma... 44.1 0.019 gb|AC090465.15| Homo sapiens chromosome 18, clone RP11-527C6,... 44.1 0.019 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 44.1 0.019 gb|AC091245.2| Homo sapiens chromosome 15 clone RP11-456H13 m... 44.1 0.019 emb|AL589763.6| Human DNA sequence from clone RP11-290P14 on ... 44.1 0.019 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 44.1 0.019 gb|AC068541.7|AC068541 Homo sapiens BAC clone RP11-243P9 from... 44.1 0.019 gb|AC007379.2|AC007379 Homo sapiens BAC clone RP11-143C1 from... 44.1 0.019 gb|AC117796.12| Mus musculus chromosome 1, clone RP24-554P6, ... 44.1 0.019 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 44.1 0.019 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 44.1 0.019 gb|AC115959.17| Mus musculus chromosome 1, clone RP24-65D16, ... 44.1 0.019 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 44.1 0.019 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 44.1 0.019 !"#$%&'& *)(& emb|AL845318.8| Mouse DNA sequence from clone RP23-326F22 on ... 44.1 0.019 emb|AL928959.9| Mouse DNA sequence from clone RP23-73I19 on c... 44.1 0.019 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 44.1 0.019 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 44.1 0.019 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 44.1 0.019 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 44.1 0.019 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 44.1 0.019 gb|M32272.1|MUSUG1PS Mouse small nuclear RNA U1 pseudogene 44.1 0.019 gb|M32271.1|MUSUG1B6 Mouse small nuclear RNA U1b6 gene 44.1 0.019 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 44.1 0.019 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 44.1 0.019 gb|J00645.1|MUSUG1A mouse u1 small nuclear rna (snrna) gene 44.1 0.019 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 44.1 0.019 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 44.1 0.019 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 44.1 0.019 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 44.1 0.019 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 44.1 0.019 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 44.1 0.019 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 44.1 0.019 emb|V00444.1| Gallus gallus nuclear U1A snRNA 44.1 0.019 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 44.1 0.019 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 44.1 0.019 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 44.1 0.019 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 44.1 0.019 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 44.1 0.019 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 44.1 0.019 emb|V01268.1| Rattus norvegicus U1A snRNA 44.1 0.019 emb|V01266.1| Rattus norvegicus U1 snRNA 44.1 0.019 gb|AC025521.21| Homo sapiens chromosome 17, clone RP11-579A4,... 42.1 0.075 gb|AC187734.2| Pan troglodytes BAC clone CH251-481K15 from ch... 42.1 0.075 gb|AC005377.2| Homo sapiens PAC clone RP5-1136G2 from 7, comp... 42.1 0.075 gb|AC144780.1| Pan troglodytes BAC clone RP43-2J12 from chrom... 42.1 0.075 gb|AC011195.14| Homo sapiens chromosome 17, clone CTD-2200P10... 42.1 0.075 gb|AC113191.13| Homo sapiens chromosome 8, clone RP11-598P20,... 42.1 0.075 gb|AC009476.3| Homo sapiens BAC clone RP11-207O14 from 2, com... 42.1 0.075 gb|AC193550.4| Rhesus Macaque BAC CH250-136K12 () complete se... 40.1 0.30 gb|AC098889.3| Mus musculus BAC clone RP23-122O10 from 10, co... 40.1 0.30 gb|AC159821.2| Mus musculus BAC clone RP23-152A3 from chromos... 40.1 0.30 gb|AC023202.8| Homo sapiens chromosome 8, clone RP11-203E8, c... 40.1 0.30 gb|AC158597.7| Mus musculus 10 BAC RP24-216E13 (Roswell Park ... 40.1 0.30 gb|AC142168.3| Mus musculus BAC clone RP24-80B23 from chromos... 40.1 0.30 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 38.2 1.2 emb|FR833292.1| Albugo laibachii Alem1, genomic contig CONTIG... 38.2 1.2 emb|FR824263.1| Albugo laibachii Nc14, genomic contig CONTIG_... 38.2 1.2 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 38.2 1.2 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 38.2 1.2 gb|AC242284.3| Homo sapiens FOSMID clone ABC12-46376000H3 fro... 38.2 1.2 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 38.2 1.2 emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 38.2 1.2 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 38.2 1.2 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 38.2 1.2 gb|AC241849.3| Homo sapiens FOSMID clone ABC7-42363600O8 from... 38.2 1.2 gb|AC241584.3| Homo sapiens BAC clone CH17-116K11 from chromo... 38.2 1.2 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 38.2 1.2 gb|AC239402.3| Chlorocebus aethiops BAC clone CH252-392N22 fr... 38.2 1.2

Query= U1_9_long_scaffold_358 Megablast Score E Sequences producing significant alignments: (Bits) Value emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 137 2e-29

Blastn Score E Sequences producing significant alignments: (Bits) Value !"#$%&'& *)0& emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 140 1e-30 emb|X00549.1| Xenopus laevis gene for U1snRNA 136 2e-29 gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 131 7e-28 emb|X02585.1| Xenopus laevis tandemly arranged embryonic U1 s... 131 7e-28 gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 129 3e-27 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 129 3e-27 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 129 3e-27 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 127 9e-27 gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 127 9e-27 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 127 9e-27 gb|K02698.1|XELUR1D3 X. laevis U1 small nuclear RNA, clone U1cD3 127 9e-27 gb|K02697.1|XELUR1D2 X. laevis U1 small nuclear RNA, clone U1cD2 125 3e-26 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 122 4e-25 emb|FQ225205.1| Rattus norvegicus TL0AEA54YM12 mRNA sequence 122 4e-25 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 122 4e-25 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 122 4e-25 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 122 4e-25 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 122 4e-25 gb|AC134906.3| Mus musculus BAC clone RP23-361K7 from chromos... 122 4e-25 gb|AC121940.3| Mus musculus BAC clone RP24-209B21 from chromo... 122 4e-25 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 122 4e-25 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 122 4e-25 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 122 4e-25 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 122 4e-25 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 122 4e-25 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 122 4e-25 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 122 4e-25 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 122 4e-25 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 122 4e-25 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 122 4e-25 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 122 4e-25 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 122 4e-25 gb|K02696.1|XELUR1D1 X. laevis U1 small nuclear RNA, clone U1cD1 122 4e-25 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 122 4e-25 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 122 4e-25 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 122 4e-25 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 122 4e-25 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 122 4e-25 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 122 4e-25 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 122 4e-25 emb|V01268.1| Rattus norvegicus U1A snRNA 122 4e-25 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 120 1e-24 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 120 1e-24 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 120 1e-24 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 118 5e-24 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 118 5e-24 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 118 5e-24 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 118 5e-24 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 118 5e-24 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 118 5e-24 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 118 5e-24 gb|AC204451.3| Tupaia belangeri clone CH275-568F14, complete ... 118 5e-24 gb|AC239803.3| Homo sapiens BAC clone CH17-43A10 from chromos... 118 5e-24 gb|AC240619.1| Homo sapiens FOSMID clone ABC24-417K8 from chr... 118 5e-24 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 118 5e-24 gb|FJ916032.1| Macaca mulatta U1-1 snRNA gene, complete sequence 118 5e-24 emb|FP326720.5| Human DNA sequence from clone WI2-3290K16 on ... 118 5e-24 ref|NR_004426.2| Homo sapiens RNA, U1 small nuclear 9 (RNU1-9... 118 5e-24 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 118 5e-24 ref|NR_004424.2| Homo sapiens RNA, U1 small nuclear 7 (RNU1-7... 118 5e-24 ref|NR_030723.1| Homo sapiens RNA, U1 small nuclear 6 (RNU1-6... 118 5e-24 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 118 5e-24 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 118 5e-24 dbj|AK299482.1| Homo sapiens cDNA FLJ60842 complete cds, high... 118 5e-24 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 118 5e-24 !"#$%&'& *)1& gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 118 5e-24 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 118 5e-24 ref|NR_004427.1| Homo sapiens RNA, U1 small nuclear 2 (RNU1-2... 118 5e-24 ref|NR_004421.1| Homo sapiens RNA, U1 small nuclear 4 (RNU1-4... 118 5e-24 ref|NR_004408.1| Homo sapiens RNA, U1 small nuclear 3 (RNU1-3... 118 5e-24 ref|NR_004400.1| Homo sapiens RNA, U1 small nuclear 5 (RNU1-5... 118 5e-24 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 118 5e-24 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 118 5e-24 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 118 5e-24 gb|AC210639.3| Macaca mulatta BAC CH250-534M21 (Children's Ho... 118 5e-24 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 118 5e-24 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 118 5e-24 gb|AC193932.3| Pan troglodytes BAC clone CH251-252B23 from ch... 118 5e-24 gb|AC193203.3| Pan troglodytes BAC clone CH251-709J5 from chr... 118 5e-24 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 118 5e-24 gb|AC193815.3| Pan troglodytes BAC clone CH251-741H24 from ch... 118 5e-24 emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 118 5e-24 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 118 5e-24 dbj|AK233498.1| Sus scrofa mRNA, clone:LVRM10159F12, expresse... 118 5e-24 dbj|AK239443.1| Sus scrofa mRNA, clone:THY010104B09, expresse... 118 5e-24 dbj|AK235935.1| Sus scrofa mRNA, clone:OVRM10127B11, expresse... 118 5e-24 dbj|AK231691.1| Sus scrofa mRNA, clone:LNG010009A02, expresse... 118 5e-24 dbj|AK231578.1| Sus scrofa mRNA, clone:ITT010100B02, expresse... 118 5e-24 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 118 5e-24 dbj|AK075135.1| Homo sapiens cDNA FLJ90654 fis, clone PLACE10... 118 5e-24 dbj|AK075079.1| Homo sapiens cDNA FLJ90598 fis, clone PLACE10... 118 5e-24 dbj|AK027791.1| Homo sapiens cDNA FLJ14885 fis, clone PLACE10... 118 5e-24 emb|BX537254.7| Human DNA sequence from clone RP6-74O6 on chr... 118 5e-24 emb|BX284668.4| Human DNA sequence from clone RP11-108M9 on c... 118 5e-24 emb|AL356004.9| Human DNA sequence from clone RP11-94I2 on ch... 118 5e-24 emb|AL356957.27| Human DNA sequence from clone RP11-403I13 on... 118 5e-24 emb|AL137798.8| Human DNA sequence from clone RP5-1182A14 on ... 118 5e-24 dbj|AK026936.1| Homo sapiens cDNA: FLJ23283 fis, clone HEP087... 118 5e-24 emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 118 5e-24 emb|AL445363.7| Human chromosome 14 DNA sequence BAC R-671J11... 118 5e-24

Query= U1_10_scaffold_358 Megablast Score E Sequences producing significant alignments: (Bits) Value gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 110 1e-21 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 104 5e-20 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 104 5e-20 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 104 5e-20 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 104 5e-20 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 104 5e-20 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 104 5e-20 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 104 5e-20 gb|AC134906.3| Mus musculus BAC clone RP23-361K7 from chromos... 104 5e-20 gb|AC121940.3| Mus musculus BAC clone RP24-209B21 from chromo... 104 5e-20 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 104 5e-20 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 104 5e-20 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 104 5e-20 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 104 5e-20 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 104 5e-20 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 104 5e-20 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 104 5e-20 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 104 5e-20 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 104 5e-20 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 104 5e-20 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 104 5e-20 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 104 5e-20 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 104 5e-20 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 104 5e-20 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 104 5e-20 !"#$%&'& **)& gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 104 5e-20 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 104 5e-20 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 104 5e-20 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 104 5e-20 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 104 5e-20 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 104 5e-20 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 104 5e-20 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 104 5e-20 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 104 5e-20 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 104 5e-20 emb|V00444.1| Gallus gallus nuclear U1A snRNA 104 5e-20 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 104 5e-20 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 104 5e-20 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 104 5e-20 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 104 5e-20 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 104 5e-20 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 104 5e-20 emb|V01268.1| Rattus norvegicus U1A snRNA 104 5e-20 gb|AC104136.5| Homo sapiens BAC clone RP11-782E2 from 4, comp... 102 2e-19 gb|EU007908.1| Mus musculus apolipoprotein A-II (Apoa2) gene,... 100 7e-19 gb|AC117796.12| Mus musculus chromosome 1, clone RP24-554P6, ... 100 7e-19 gb|AC115959.17| Mus musculus chromosome 1, clone RP24-65D16, ... 100 7e-19 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 99.0 2e-18 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 99.0 2e-18 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 99.0 2e-18 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 99.0 2e-18 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 99.0 2e-18 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 99.0 2e-18 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 99.0 2e-18 gb|AC204451.3| Tupaia belangeri clone CH275-568F14, complete ... 99.0 2e-18 gb|AC239803.3| Homo sapiens BAC clone CH17-43A10 from chromos... 99.0 2e-18 gb|AC240619.1| Homo sapiens FOSMID clone ABC24-417K8 from chr... 99.0 2e-18 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 99.0 2e-18 gb|FJ916034.1| Macaca mulatta U1-3 snRNA gene, complete sequence 99.0 2e-18 gb|FJ916032.1| Macaca mulatta U1-1 snRNA gene, complete sequence 99.0 2e-18 dbj|AK350052.1| Sus scrofa mRNA, clone:SMG010053G10, expresse... 99.0 2e-18 emb|FP326720.5| Human DNA sequence from clone WI2-3290K16 on ... 99.0 2e-18 ref|NR_004426.2| Homo sapiens RNA, U1 small nuclear 9 (RNU1-9... 99.0 2e-18 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 99.0 2e-18 ref|NR_004424.2| Homo sapiens RNA, U1 small nuclear 7 (RNU1-7... 99.0 2e-18 ref|NR_030723.1| Homo sapiens RNA, U1 small nuclear 6 (RNU1-6... 99.0 2e-18 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 99.0 2e-18 dbj|AK299482.1| Homo sapiens cDNA FLJ60842 complete cds, high... 99.0 2e-18 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 99.0 2e-18 gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 99.0 2e-18 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 99.0 2e-18 ref|NR_004427.1| Homo sapiens RNA, U1 small nuclear 2 (RNU1-2... 99.0 2e-18 ref|NR_004421.1| Homo sapiens RNA, U1 small nuclear 4 (RNU1-4... 99.0 2e-18 ref|NR_004408.1| Homo sapiens RNA, U1 small nuclear 3 (RNU1-3... 99.0 2e-18 ref|NR_004400.1| Homo sapiens RNA, U1 small nuclear 5 (RNU1-5... 99.0 2e-18 gb|AC210224.5| Macaca mulatta BAC CH250-384O14 (Children's Ho... 99.0 2e-18 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 99.0 2e-18 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 99.0 2e-18 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 99.0 2e-18 gb|AC210639.3| Macaca mulatta BAC CH250-534M21 (Children's Ho... 99.0 2e-18 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 99.0 2e-18 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 99.0 2e-18 gb|AC193932.3| Pan troglodytes BAC clone CH251-252B23 from ch... 99.0 2e-18 gb|AC193203.3| Pan troglodytes BAC clone CH251-709J5 from chr... 99.0 2e-18 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 99.0 2e-18 gb|AC193815.3| Pan troglodytes BAC clone CH251-741H24 from ch... 99.0 2e-18 dbj|AB170793.1| Macaca fascicularis brain cDNA clone: QorA-10... 99.0 2e-18 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 99.0 2e-18 dbj|AK233498.1| Sus scrofa mRNA, clone:LVRM10159F12, expresse... 99.0 2e-18 dbj|AK239443.1| Sus scrofa mRNA, clone:THY010104B09, expresse... 99.0 2e-18 !"#$%&'& ***& dbj|AK235935.1| Sus scrofa mRNA, clone:OVRM10127B11, expresse... 99.0 2e-18 dbj|AK231691.1| Sus scrofa mRNA, clone:LNG010009A02, expresse... 99.0 2e-18 dbj|AK231578.1| Sus scrofa mRNA, clone:ITT010100B02, expresse... 99.0 2e-18 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 99.0 2e-18 gb|AC183688.2| Pan troglodytes BAC clone CH251-6F11 from chro... 99.0 2e-18 emb|BX537254.7| Human DNA sequence from clone RP6-74O6 on chr... 99.0 2e-18 emb|BX284668.4| Human DNA sequence from clone RP11-108M9 on c... 99.0 2e-18 emb|AL356004.9| Human DNA sequence from clone RP11-94I2 on ch... 99.0 2e-18 gb|AC146599.3| Mus musculus BAC clone RP24-128L9 from 6, comp... 99.0 2e-18 gb|AC122240.4| Mus musculus BAC clone RP23-145L9 from 6, comp... 99.0 2e-18

Query= U1_11_scaffold_358 Megablast Score E Sequences producing significant alignments: (Bits) Value gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 99.0 2e-18 emb|FQ232491.1| Rattus norvegicus TL0AEA65YI18 mRNA sequence 93.5 9e-17 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 93.5 9e-17 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 93.5 9e-17 gb|EU240279.1| Gallus gallus clone 3632 GGN63 snRNA, complete... 93.5 9e-17 ref|NR_004412.1| Mus musculus U1b1 small nuclear RNA (Rnu1b1)... 93.5 9e-17 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 93.5 9e-17 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 93.5 9e-17 gb|AC134906.3| Mus musculus BAC clone RP23-361K7 from chromos... 93.5 9e-17 gb|AC121940.3| Mus musculus BAC clone RP24-209B21 from chromo... 93.5 9e-17 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 93.5 9e-17 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 93.5 9e-17 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 93.5 9e-17 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 93.5 9e-17 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 93.5 9e-17 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 93.5 9e-17 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 93.5 9e-17 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 93.5 9e-17 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 93.5 9e-17 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 93.5 9e-17 emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 93.5 9e-17 gb|M16319.1|RATUGPS Rat U1 small nuclear RNA pseudogene 93.5 9e-17 gb|K02433.1|RATUG1PS2 Rat U1 small nuclear RNA pseudogene, cl... 93.5 9e-17 gb|K02432.1|RATUG1PS1 Rat U1 small nuclear RNA pseudogene, cl... 93.5 9e-17 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 93.5 9e-17 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 93.5 9e-17 gb|M32270.1|MUSUG1B2A Mouse small nuclear RNA U1b2 gene 93.5 9e-17 gb|K03128.1|MUSUG1B1 Mouse small nuclear RNA U1b gene, first ... 93.5 9e-17 gb|M14121.1|MUSU1A1 Mouse U1a1 gene encoding small nuclear RN... 93.5 9e-17 gb|J01883.1|RATUR1A Rat U1a small nuclear RNA (snRNA) 93.5 9e-17 gb|M10945.1|MUSUR1A1 U1a-1 RNA from transformed mouse cell lines 93.5 9e-17 gb|J00914.1|CHKSRU1R chicken u1 small nuclear rna (snrna) 93.5 9e-17 emb|X01093.1| Chicken U1 RNA gene (U1-52c) 93.5 9e-17 emb|X01092.1| Chicken U1 RNA gene (U1-52b) 93.5 9e-17 emb|X01091.1| Chicken U1 RNA gene (U1-52a) 93.5 9e-17 emb|V00444.1| Gallus gallus nuclear U1A snRNA 93.5 9e-17 emb|X12932.1| Rat U1 RNA class I gene 6-6B for small nuclear RNA 93.5 9e-17 emb|X12931.1| Rat U1 RNA class I gene 6-6A for small nuclear RNA 93.5 9e-17 emb|X12936.1| Rat U1 RNA class II gene 18-5 for small nuclear... 93.5 9e-17 emb|X12935.1| Rat U1 RNA class II gene 18-3B for small nuclea... 93.5 9e-17 emb|X12934.1| Rat U1 RNA class II gene 18-3A for small nuclea... 93.5 9e-17 emb|X12933.1| Rat U1 RNA class I gene 17-3 for small nuclear RNA 93.5 9e-17 emb|V01268.1| Rattus norvegicus U1A snRNA 93.5 9e-17 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 87.9 4e-15 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 87.9 4e-15 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 87.9 4e-15 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 87.9 4e-15 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 87.9 4e-15 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 87.9 4e-15 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 87.9 4e-15 !"#$%&'& **+& gb|AC204451.3| Tupaia belangeri clone CH275-568F14, complete ... 87.9 4e-15 gb|AC240619.1| Homo sapiens FOSMID clone ABC24-417K8 from chr... 87.9 4e-15 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 87.9 4e-15 gb|FJ916034.1| Macaca mulatta U1-3 snRNA gene, complete sequence 87.9 4e-15 gb|FJ916032.1| Macaca mulatta U1-1 snRNA gene, complete sequence 87.9 4e-15 dbj|AK350052.1| Sus scrofa mRNA, clone:SMG010053G10, expresse... 87.9 4e-15 emb|FP326720.5| Human DNA sequence from clone WI2-3290K16 on ... 87.9 4e-15 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 87.9 4e-15 ref|NR_004424.2| Homo sapiens RNA, U1 small nuclear 7 (RNU1-7... 87.9 4e-15 pdb|3CW1|XX Chain x, Crystal Structure Of Human Spliceosomal ... 87.9 4e-15 pdb|3CW1|WW Chain w, Crystal Structure Of Human Spliceosomal ... 87.9 4e-15 pdb|3CW1|VV Chain v, Crystal Structure Of Human Spliceosomal ... 87.9 4e-15 pdb|3CW1|V Chain V, Crystal Structure Of Human Spliceosomal U... 87.9 4e-15 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 87.9 4e-15 dbj|AK299482.1| Homo sapiens cDNA FLJ60842 complete cds, high... 87.9 4e-15 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 87.9 4e-15 gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 87.9 4e-15 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 87.9 4e-15 ref|NR_004427.1| Homo sapiens RNA, U1 small nuclear 2 (RNU1-2... 87.9 4e-15 ref|NR_004421.1| Homo sapiens RNA, U1 small nuclear 4 (RNU1-4... 87.9 4e-15 ref|NR_004408.1| Homo sapiens RNA, U1 small nuclear 3 (RNU1-3... 87.9 4e-15 ref|NR_004400.1| Homo sapiens RNA, U1 small nuclear 5 (RNU1-5... 87.9 4e-15 gb|AC210224.5| Macaca mulatta BAC CH250-384O14 (Children's Ho... 87.9 4e-15 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 87.9 4e-15 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 87.9 4e-15 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 87.9 4e-15 gb|AC210639.3| Macaca mulatta BAC CH250-534M21 (Children's Ho... 87.9 4e-15 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 87.9 4e-15 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 87.9 4e-15 gb|EU007908.1| Mus musculus apolipoprotein A-II (Apoa2) gene,... 87.9 4e-15 gb|AC193932.3| Pan troglodytes BAC clone CH251-252B23 from ch... 87.9 4e-15 gb|AC193203.3| Pan troglodytes BAC clone CH251-709J5 from chr... 87.9 4e-15 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 87.9 4e-15 gb|AC164871.3| Sorex araneus, clone XX-26497957E19, complete ... 87.9 4e-15 dbj|AB170793.1| Macaca fascicularis brain cDNA clone: QorA-10... 87.9 4e-15 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 87.9 4e-15 dbj|AK233498.1| Sus scrofa mRNA, clone:LVRM10159F12, expresse... 87.9 4e-15 dbj|AK239443.1| Sus scrofa mRNA, clone:THY010104B09, expresse... 87.9 4e-15 dbj|AK235935.1| Sus scrofa mRNA, clone:OVRM10127B11, expresse... 87.9 4e-15 dbj|AK231691.1| Sus scrofa mRNA, clone:LNG010009A02, expresse... 87.9 4e-15 dbj|AK231578.1| Sus scrofa mRNA, clone:ITT010100B02, expresse... 87.9 4e-15 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 87.9 4e-15 emb|BX284668.4| Human DNA sequence from clone RP11-108M9 on c... 87.9 4e-15 gb|AC104136.5| Homo sapiens BAC clone RP11-782E2 from 4, comp... 87.9 4e-15 gb|AC117796.12| Mus musculus chromosome 1, clone RP24-554P6, ... 87.9 4e-15 gb|AC115959.17| Mus musculus chromosome 1, clone RP24-65D16, ... 87.9 4e-15 gb|AC146599.3| Mus musculus BAC clone RP24-128L9 from 6, comp... 87.9 4e-15 gb|AC122240.4| Mus musculus BAC clone RP23-145L9 from 6, comp... 87.9 4e-15 emb|AL928959.9| Mouse DNA sequence from clone RP23-73I19 on c... 87.9 4e-15 emb|AL445363.7| Human chromosome 14 DNA sequence BAC R-671J11... 87.9 4e-15

Query= U1_12_scaffold_358 Megablast Score E Sequences producing significant alignments: (Bits) Value emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 77.8 3e-12 ref|NR_004413.2| Mus musculus U1b6 small nuclear RNA (Rnu1b6)... 77.8 3e-12 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 77.8 3e-12 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 77.8 3e-12 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 77.8 3e-12 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 77.8 3e-12 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 77.8 3e-12 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 77.8 3e-12 gb|AC204451.3| Tupaia belangeri clone CH275-568F14, complete ... 77.8 3e-12 emb|FQ225205.1| Rattus norvegicus TL0AEA54YM12 mRNA sequence 77.8 3e-12 !"#$%&'& **,& emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 77.8 3e-12 gb|AC239860.3| Homo sapiens BAC clone CH17-262O2 from chromos... 77.8 3e-12 gb|AC239803.3| Homo sapiens BAC clone CH17-43A10 from chromos... 77.8 3e-12 gb|AC240619.1| Homo sapiens FOSMID clone ABC24-417K8 from chr... 77.8 3e-12 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 77.8 3e-12 gb|FJ916034.1| Macaca mulatta U1-3 snRNA gene, complete sequence 77.8 3e-12 gb|FJ916033.1| Macaca mulatta U1-2 snRNA gene, complete sequence 77.8 3e-12 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 77.8 3e-12 ref|NR_004426.2| Homo sapiens RNA, U1 small nuclear 9 (RNU1-9... 77.8 3e-12 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 77.8 3e-12 ref|NR_004424.2| Homo sapiens RNA, U1 small nuclear 7 (RNU1-7... 77.8 3e-12 ref|NR_030723.1| Homo sapiens RNA, U1 small nuclear 6 (RNU1-6... 77.8 3e-12 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 77.8 3e-12 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 77.8 3e-12 dbj|AK299482.1| Homo sapiens cDNA FLJ60842 complete cds, high... 77.8 3e-12 dbj|AK295308.1| Homo sapiens cDNA FLJ60547 complete cds, high... 77.8 3e-12 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 77.8 3e-12 gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 77.8 3e-12 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 77.8 3e-12 ref|NR_004427.1| Homo sapiens RNA, U1 small nuclear 2 (RNU1-2... 77.8 3e-12 ref|NR_004421.1| Homo sapiens RNA, U1 small nuclear 4 (RNU1-4... 77.8 3e-12 ref|NR_004408.1| Homo sapiens RNA, U1 small nuclear 3 (RNU1-3... 77.8 3e-12 ref|NR_004400.1| Homo sapiens RNA, U1 small nuclear 5 (RNU1-5... 77.8 3e-12 gb|AC210224.5| Macaca mulatta BAC CH250-384O14 (Children's Ho... 77.8 3e-12 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 77.8 3e-12 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 77.8 3e-12 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 77.8 3e-12 gb|AC210639.3| Macaca mulatta BAC CH250-534M21 (Children's Ho... 77.8 3e-12 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 77.8 3e-12 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 77.8 3e-12 gb|AC193932.3| Pan troglodytes BAC clone CH251-252B23 from ch... 77.8 3e-12 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 77.8 3e-12 gb|AC193203.3| Pan troglodytes BAC clone CH251-709J5 from chr... 77.8 3e-12 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 77.8 3e-12 gb|AC193815.3| Pan troglodytes BAC clone CH251-741H24 from ch... 77.8 3e-12 dbj|AB170793.1| Macaca fascicularis brain cDNA clone: QorA-10... 77.8 3e-12 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 77.8 3e-12 dbj|AK231691.1| Sus scrofa mRNA, clone:LNG010009A02, expresse... 77.8 3e-12 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 77.8 3e-12 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 77.8 3e-12 gb|AC156952.22| Mus musculus 10 BAC RP24-385D2 (Roswell Park ... 77.8 3e-12 gb|AC168274.5| Mus musculus BAC RP23-229B1 (Roswell Park Canc... 77.8 3e-12 gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 77.8 3e-12 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 77.8 3e-12 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 77.8 3e-12 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 77.8 3e-12 dbj|AK075135.1| Homo sapiens cDNA FLJ90654 fis, clone PLACE10... 77.8 3e-12 dbj|AK075079.1| Homo sapiens cDNA FLJ90598 fis, clone PLACE10... 77.8 3e-12 dbj|AK027791.1| Homo sapiens cDNA FLJ14885 fis, clone PLACE10... 77.8 3e-12 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 77.8 3e-12 gb|AC091509.3| Felis catus clone RP86-468O8, complete sequence 77.8 3e-12 gb|AC091542.3| Felis catus clone RP86-141L11, complete sequence 77.8 3e-12 dbj|AK133608.1| Mus musculus adult male pituitary gland cDNA,... 77.8 3e-12 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 77.8 3e-12 gb|AC140776.6| Mus musculus chromosome 1, clone RP23-284K5, c... 77.8 3e-12 emb|BX537254.7| Human DNA sequence from clone RP6-74O6 on chr... 77.8 3e-12 emb|BX284668.4| Human DNA sequence from clone RP11-108M9 on c... 77.8 3e-12 emb|AL356004.9| Human DNA sequence from clone RP11-94I2 on ch... 77.8 3e-12 emb|AL356957.27| Human DNA sequence from clone RP11-403I13 on... 77.8 3e-12 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 77.8 3e-12 emb|AL512323.8| Human DNA sequence from clone RP13-445B20 on ... 77.8 3e-12 emb|AL137798.8| Human DNA sequence from clone RP5-1182A14 on ... 77.8 3e-12 emb|AL137802.7| Human DNA sequence from clone RP4-798A10 on c... 77.8 3e-12 emb|AL021920.1| Human DNA sequence from clone RP1-163M9 on ch... 77.8 3e-12 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 77.8 3e-12 !"#$%&'& **-& dbj|AK026936.1| Homo sapiens cDNA: FLJ23283 fis, clone HEP087... 77.8 3e-12 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 77.8 3e-12 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 77.8 3e-12 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 77.8 3e-12 gb|AC124718.4| Mus musculus BAC clone RP23-373N7 from 1, comp... 77.8 3e-12 emb|AL928959.9| Mouse DNA sequence from clone RP23-73I19 on c... 77.8 3e-12 emb|AL445363.7| Human chromosome 14 DNA sequence BAC R-671J11... 77.8 3e-12 gb|L33345.1|DOGU1SNRNA Canis familiaris U1 snRNA gene 77.8 3e-12 gb|K00785.1|HUMUG1PC human u1.7 small nuclear rna pseudogene 77.8 3e-12 gb|M25192.1|HUMUG17PS xxman class II small nuclear RNA U1 pse... 77.8 3e-12 gb|K00529.1|HUMUG16 human small nuclear rna (snrna) gene (clo... 77.8 3e-12 gb|M25190.1|HUMUG115PS Human class I U1 small nuclear RNA pse... 77.8 3e-12 gb|J00318.1|HUMUG1 Human U1 small nuclear RNA (snRNA) gene HU1-1 77.8 3e-12 gb|M28013.1|HUMSNU1C21 Human U1 small nuclear RNA gene, clone... 77.8 3e-12 gb|M28012.1|HUMSNU1C1 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 gb|M14587.1|HUMRUN1F Human U1 small nuclear RNA gene, clone H... 77.8 3e-12 gb|M14586.1|HUMRUN1E2 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 gb|M14585.1|HUMRUN1D2 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 gb|M14387.1|HUMRUN1C2 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 gb|M14386.1|HUMRUN1B2 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 gb|M14385.1|HUMRUN1A1 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 gb|K02430.1|RATUG12 Rat U1 small nuclear RNA gene, clone 6-6(B) 77.8 3e-12 gb|J00800.1|RATUG11 Rat U1 small nuclear RNA gene, clone 6-6(A) 77.8 3e-12 gb|M32272.1|MUSUG1PS Mouse small nuclear RNA U1 pseudogene 77.8 3e-12 gb|M32271.1|MUSUG1B6 Mouse small nuclear RNA U1b6 gene 77.8 3e-12

Query= U1_13_scaffold_123 Megablast Score E Sequences producing significant alignments: (Bits) Value emb|AL732520.14| Mouse DNA sequence from clone RP23-123E1 on ... 85.7 1e-14 emb|FP700122.11| Human DNA sequence from clone CH17-408M7 on ... 77.8 3e-12 ref|NR_004413.2| Mus musculus U1b6 small nuclear RNA (Rnu1b6)... 77.8 3e-12 pdb|3PGW|N Chain N, Crystal Structure Of Human U1 Snrnp 77.8 3e-12 pdb|3PGW|R Chain R, Crystal Structure Of Human U1 Snrnp 77.8 3e-12 gb|AC242613.2| Homo sapiens FOSMID clone ABC12-7902149B10 fro... 77.8 3e-12 gb|AC241878.3| Homo sapiens FOSMID clone ABC11-48018600E23 fr... 77.8 3e-12 gb|AC239798.3| Homo sapiens BAC clone CH17-208B1 from chromos... 77.8 3e-12 gb|AC211594.4| Pongo abelii BAC clone CH276-410H15 from chrom... 77.8 3e-12 gb|AC204451.3| Tupaia belangeri clone CH275-568F14, complete ... 77.8 3e-12 emb|FQ225205.1| Rattus norvegicus TL0AEA54YM12 mRNA sequence 77.8 3e-12 emb|FQ234208.1| Rattus norvegicus TL0AEA59YM16 mRNA sequence 77.8 3e-12 gb|AC239860.3| Homo sapiens BAC clone CH17-262O2 from chromos... 77.8 3e-12 gb|AC239803.3| Homo sapiens BAC clone CH17-43A10 from chromos... 77.8 3e-12 gb|AC240619.1| Homo sapiens FOSMID clone ABC24-417K8 from chr... 77.8 3e-12 gb|AC239800.3| Homo sapiens BAC clone CH17-377G3 from chromos... 77.8 3e-12 gb|FJ916034.1| Macaca mulatta U1-3 snRNA gene, complete sequence 77.8 3e-12 gb|FJ916033.1| Macaca mulatta U1-2 snRNA gene, complete sequence 77.8 3e-12 ref|NR_033274.1| Xenopus laevis U1b small nuclear RNA (LOC100... 77.8 3e-12 emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 77.8 3e-12 ref|NR_004426.2| Homo sapiens RNA, U1 small nuclear 9 (RNU1-9... 77.8 3e-12 ref|NR_004402.2| Homo sapiens RNA, U1 small nuclear 8 (RNU1-8... 77.8 3e-12 ref|NR_004424.2| Homo sapiens RNA, U1 small nuclear 7 (RNU1-7... 77.8 3e-12 ref|NR_030723.1| Homo sapiens RNA, U1 small nuclear 6 (RNU1-6... 77.8 3e-12 emb|FM991912.1| Mus musculus U1 snRNA, strain C57BL/6J 77.8 3e-12 gb|AC231122.3| Homo sapiens FOSMID clone ABC12-49225400B13 fr... 77.8 3e-12 emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 77.8 3e-12 dbj|AK299482.1| Homo sapiens cDNA FLJ60842 complete cds, high... 77.8 3e-12 dbj|AK295308.1| Homo sapiens cDNA FLJ60547 complete cds, high... 77.8 3e-12 ref|XM_001490467.2| PREDICTED: Equus caballus similar to E2F-... 77.8 3e-12 gb|AC198707.3| MACACA MULATTA BAC clone CH250-335K1 from chro... 77.8 3e-12 gb|AC210223.5| Macaca mulatta BAC CH250-362B18 (Children's Ho... 77.8 3e-12 ref|NR_004427.1| Homo sapiens RNA, U1 small nuclear 2 (RNU1-2... 77.8 3e-12 ref|NR_004421.1| Homo sapiens RNA, U1 small nuclear 4 (RNU1-4... 77.8 3e-12 ref|NR_004408.1| Homo sapiens RNA, U1 small nuclear 3 (RNU1-3... 77.8 3e-12 !"#$%&'& **.& ref|NR_004400.1| Homo sapiens RNA, U1 small nuclear 5 (RNU1-5... 77.8 3e-12 gb|AC210224.5| Macaca mulatta BAC CH250-384O14 (Children's Ho... 77.8 3e-12 gb|AC210289.6| Macaca mulatta BAC CH250-190A18 (Children's Ho... 77.8 3e-12 gb|AC210637.2| Macaca mulatta BAC CH250-396N15 (Children's Ho... 77.8 3e-12 gb|AC213203.1| Homo sapiens chromosome 1 clone WI2-3206N8, co... 77.8 3e-12 gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 77.8 3e-12 gb|AC210639.3| Macaca mulatta BAC CH250-534M21 (Children's Ho... 77.8 3e-12 gb|AC210638.2| Macaca mulatta BAC CH250-460J1 (Children's Hos... 77.8 3e-12 gb|AC210222.4| Macaca mulatta BAC CH250-358D20 (Children's Ho... 77.8 3e-12 gb|AC193932.3| Pan troglodytes BAC clone CH251-252B23 from ch... 77.8 3e-12 emb|CU406969.5| Mouse DNA sequence from clone CH29-624A16 on ... 77.8 3e-12 gb|AC193203.3| Pan troglodytes BAC clone CH251-709J5 from chr... 77.8 3e-12 gb|AC193007.4| Pan troglodytes BAC clone CH251-642H14 from ch... 77.8 3e-12 gb|AC193815.3| Pan troglodytes BAC clone CH251-741H24 from ch... 77.8 3e-12 dbj|AB170793.1| Macaca fascicularis brain cDNA clone: QorA-10... 77.8 3e-12 gb|AC193137.1| Homo sapiens chromosome 14 clone WI2-2240L7, c... 77.8 3e-12 dbj|AK231691.1| Sus scrofa mRNA, clone:LNG010009A02, expresse... 77.8 3e-12 dbj|AK234172.1| Sus scrofa mRNA, clone:OVR010018G03, expresse... 77.8 3e-12 emb|CT030142.10| Mouse DNA sequence from clone RP23-422H22 on... 77.8 3e-12 gb|AC156952.22| Mus musculus 10 BAC RP24-385D2 (Roswell Park ... 77.8 3e-12 gb|AC168274.5| Mus musculus BAC RP23-229B1 (Roswell Park Canc... 77.8 3e-12 gb|AC103399.9| Mus musculus chromosome 3, clone RP23-310N18, ... 77.8 3e-12 gb|AC132622.2| Mus musculus BAC clone RP23-108P15 from 18, co... 77.8 3e-12 gb|AC122037.2| Mus musculus BAC clone RP24-426D9 from 3, comp... 77.8 3e-12 gb|AC102692.6| Mus musculus chromosome 18, clone RP24-491K18,... 77.8 3e-12 dbj|AK075135.1| Homo sapiens cDNA FLJ90654 fis, clone PLACE10... 77.8 3e-12 dbj|AK075079.1| Homo sapiens cDNA FLJ90598 fis, clone PLACE10... 77.8 3e-12 dbj|AK027791.1| Homo sapiens cDNA FLJ14885 fis, clone PLACE10... 77.8 3e-12 gb|AC102437.5| Mus musculus, clone RP24-132C7, complete sequence 77.8 3e-12 gb|AC091509.3| Felis catus clone RP86-468O8, complete sequence 77.8 3e-12 gb|AC091542.3| Felis catus clone RP86-141L11, complete sequence 77.8 3e-12 dbj|AK133608.1| Mus musculus adult male pituitary gland cDNA,... 77.8 3e-12 dbj|AK134035.1| Mus musculus adult male thymus cDNA, RIKEN fu... 77.8 3e-12 emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 77.8 3e-12 gb|AC140776.6| Mus musculus chromosome 1, clone RP23-284K5, c... 77.8 3e-12 emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 77.8 3e-12 emb|BX537254.7| Human DNA sequence from clone RP6-74O6 on chr... 77.8 3e-12 emb|BX284668.4| Human DNA sequence from clone RP11-108M9 on c... 77.8 3e-12 emb|AL356004.9| Human DNA sequence from clone RP11-94I2 on ch... 77.8 3e-12 gb|AC105008.5| Homo sapiens chromosome 8, clone CTD-2589E21, ... 77.8 3e-12 gb|AC104952.8| Homo sapiens chromosome 8, clone RP11-141J23, ... 77.8 3e-12 emb|AL356957.27| Human DNA sequence from clone RP11-403I13 on... 77.8 3e-12 gb|AY055726.2| Mus musculus synovial sarcoma associated SS18 ... 77.8 3e-12 emb|AL512323.8| Human DNA sequence from clone RP13-445B20 on ... 77.8 3e-12 emb|AL137798.8| Human DNA sequence from clone RP5-1182A14 on ... 77.8 3e-12 emb|AL137802.7| Human DNA sequence from clone RP4-798A10 on c... 77.8 3e-12 emb|AL021920.1| Human DNA sequence from clone RP1-163M9 on ch... 77.8 3e-12 emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 77.8 3e-12 emb|AL669902.8| Mouse DNA sequence from clone RP23-459P8 on c... 77.8 3e-12 dbj|AK026936.1| Homo sapiens cDNA: FLJ23283 fis, clone HEP087... 77.8 3e-12 emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 77.8 3e-12 gb|AC165349.2| Mus musculus BAC clone RP23-212M22 from chromo... 77.8 3e-12 gb|AC093350.15| Mus musculus chromosome 3, clone RP23-16G3, c... 77.8 3e-12 gb|AC121792.3| Mus musculus BAC clone RP23-404J7 from 3, comp... 77.8 3e-12 gb|AC124718.4| Mus musculus BAC clone RP23-373N7 from 1, comp... 77.8 3e-12 emb|AL928959.9| Mouse DNA sequence from clone RP23-73I19 on c... 77.8 3e-12 emb|AL445363.7| Human chromosome 14 DNA sequence BAC R-671J11... 77.8 3e-12 gb|L33345.1|DOGU1SNRNA Canis familiaris U1 snRNA gene 77.8 3e-12 gb|K00785.1|HUMUG1PC human u1.7 small nuclear rna pseudogene 77.8 3e-12 gb|M25192.1|HUMUG17PS xxman class II small nuclear RNA U1 pse... 77.8 3e-12 gb|K00529.1|HUMUG16 human small nuclear rna (snrna) gene (clo... 77.8 3e-12 gb|M25190.1|HUMUG115PS Human class I U1 small nuclear RNA pse... 77.8 3e-12 gb|J00318.1|HUMUG1 Human U1 small nuclear RNA (snRNA) gene HU1-1 77.8 3e-12 gb|M28013.1|HUMSNU1C21 Human U1 small nuclear RNA gene, clone... 77.8 3e-12 gb|M28012.1|HUMSNU1C1 Human U1 small nuclear RNA gene, clone ... 77.8 3e-12 !"#$%&'& **/&

5 – The overlapping of blast results using U1_6 as the query with the results when other U1 copies were submitted to same procedure.

Score E Sequences producing significant alignments: (Bits) Value U1_1_megablast.txt:emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 152 3e-34 U1_1_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 158 6e-36 U1_1_megablast.txt:emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 152 3e-34 U1_1_megablast.txt:emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 126 2e-26 U1_1_megablast.txt:emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 121 8e-25 U1_1_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 169 3e-39 U1_1_megablast.txt:emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 124 6e-26 U1_1_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 169 3e-39 U1_1_megablast.txt:emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 152 3e-34 U1_1_megablast.txt:emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 130 1e-27 U1_1_megablast.txt:emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 152 3e-34 U1_1_megablast.txt:emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 139 2e-30 U1_1_megablast.txt:emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 152 3e-34 U1_1_megablast.txt:emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 135 3e-29 U1_1_megablast.txt:emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 152 3e-34 U1_1_megablast.txt:emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 130 1e-27 U1_1_megablast.txt:emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 104 8e-20 U1_1_megablast.txt:emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 152 3e-34 U1_1_megablast.txt:emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 130 1e-27 U1_1_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 128 5e-27 U1_1_megablast.txt:emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 135 3e-29 U1_1_megablast.txt:emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 121 8e-25 U1_1_megablast.txt:emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 130 1e-27 U1_1_megablast.txt:emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 130 1e-27 U1_1_megablast.txt:emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 104 8e-20 U1_1_megablast.txt:emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 141 6e-31 U1_1_megablast.txt:emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 152 3e-34 U1_1_megablast.txt:emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 135 3e-29 U1_1_megablast.txt:emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 117 1e-23 U1_1_megablast.txt:emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 141 6e-31 U1_1_megablast.txt:emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 135 3e-29 U1_1_megablast.txt:emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 130 1e-27 U1_1_megablast.txt:emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 152 3e-34 U1_1_megablast.txt:emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 152 3e-34 U1_1_megablast.txt:emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 130 1e-27 U1_1_megablast.txt:emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 152 3e-34 U1_1_megablast.txt:emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 130 1e-27 U1_1_megablast.txt:emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 135 3e-29 U1_1_megablast.txt:emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 124 6e-26 U1_1_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 163 1e-37 U1_1_megablast.txt:emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 152 3e-34 U1_1_megablast.txt:emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 152 3e-34 U1_1_megablast.txt:emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 152 3e-34 U1_1_megablast.txt:emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 121 8e-25 U1_1_megablast.txt:emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 135 3e-29 U1_1_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 147 1e-32 U1_1_megablast.txt:emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 126 2e-26 U1_1_megablast.txt:emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 99.0 4e-18 U1_1_megablast.txt:emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 128 5e-27 U1_1_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 147 1e-32 U1_1_megablast.txt:emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 135 3e-29 U1_1_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 147 1e-32 U1_1_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 169 3e-39 U1_1_megablast.txt:gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 156 2e-35 U1_1_megablast.txt:ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 111 5e-22 U1_2_megablast.txt:emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 156 2e-35 U1_2_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 158 5e-36 U1_2_megablast.txt:emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 156 2e-35 U1_2_megablast.txt:emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 135 2e-29 U1_2_megablast.txt:emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 135 2e-29 U1_2_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 161 4e-37 U1_2_megablast.txt:emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 135 2e-29 U1_2_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 161 4e-37 U1_2_megablast.txt:emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 156 2e-35 U1_2_megablast.txt:emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 134 9e-29 U1_2_megablast.txt:emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 156 2e-35 U1_2_megablast.txt:emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 143 1e-31 U1_2_megablast.txt:emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 156 2e-35 U1_2_megablast.txt:emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 139 2e-30 U1_2_megablast.txt:emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 156 2e-35 U1_2_megablast.txt:emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 135 2e-29 U1_2_megablast.txt:emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 119 2e-24 U1_2_megablast.txt:emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 156 2e-35 U1_2_megablast.txt:emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 135 2e-29 U1_2_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 143 1e-31 U1_2_megablast.txt:emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 139 2e-30 U1_2_megablast.txt:emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 135 2e-29 U1_2_megablast.txt:emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 135 2e-29 !"#$%&'& **(&

U1_2_megablast.txt:emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 139 2e-30 U1_2_megablast.txt:emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 119 2e-24 U1_2_megablast.txt:emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 150 9e-34 U1_2_megablast.txt:emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 156 2e-35 U1_2_megablast.txt:emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 139 2e-30 U1_2_megablast.txt:emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 130 1e-27 U1_2_megablast.txt:emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 145 4e-32 U1_2_megablast.txt:emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 139 2e-30 U1_2_megablast.txt:emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 134 9e-29 U1_2_megablast.txt:emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 156 2e-35 U1_2_megablast.txt:emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 156 2e-35 U1_2_megablast.txt:emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 135 2e-29 U1_2_megablast.txt:emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 156 2e-35 U1_2_megablast.txt:emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 135 2e-29 U1_2_megablast.txt:emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 139 2e-30 U1_2_megablast.txt:emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 135 2e-29 U1_2_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 161 4e-37 U1_2_megablast.txt:emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 156 2e-35 U1_2_megablast.txt:emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 156 2e-35 U1_2_megablast.txt:emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 158 5e-36 U1_2_megablast.txt:emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 130 1e-27 U1_2_megablast.txt:emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 139 2e-30 U1_2_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 150 9e-34 U1_2_megablast.txt:emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 141 5e-31 U1_2_megablast.txt:emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 113 1e-22 U1_2_megablast.txt:emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 143 1e-31 U1_2_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 150 9e-34 U1_2_megablast.txt:emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 139 2e-30 U1_2_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 150 9e-34 U1_2_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 161 4e-37 U1_2_megablast.txt:gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 134 9e-29 U1_3_megablast.txt:emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 150 9e-34 U1_3_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 152 2e-34 U1_3_megablast.txt:emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 150 9e-34 U1_3_megablast.txt:emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 130 1e-27 U1_3_megablast.txt:emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 130 1e-27 U1_3_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 156 2e-35 U1_3_megablast.txt:emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 130 1e-27 U1_3_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 156 2e-35 U1_3_megablast.txt:emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 150 9e-34 U1_3_megablast.txt:emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 124 5e-26 U1_3_megablast.txt:emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 150 9e-34 U1_3_megablast.txt:emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 137 7e-30 U1_3_megablast.txt:emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 150 9e-34 U1_3_megablast.txt:emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 145 4e-32 U1_3_megablast.txt:emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 150 9e-34 U1_3_megablast.txt:emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 130 1e-27 U1_3_megablast.txt:emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 113 1e-22 U1_3_megablast.txt:emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 150 9e-34 U1_3_megablast.txt:emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 130 1e-27 U1_3_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 137 7e-30 U1_3_megablast.txt:emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 130 1e-27 U1_3_megablast.txt:emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 130 1e-27 U1_3_megablast.txt:emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 130 1e-27 U1_3_megablast.txt:emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 130 1e-27 U1_3_megablast.txt:emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 113 1e-22 U1_3_megablast.txt:emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 145 4e-32 U1_3_megablast.txt:emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 150 9e-34 U1_3_megablast.txt:emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 130 1e-27 U1_3_megablast.txt:emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 124 5e-26 U1_3_megablast.txt:emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 139 2e-30 U1_3_megablast.txt:emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 130 1e-27 U1_3_megablast.txt:emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 124 5e-26 U1_3_megablast.txt:emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 150 9e-34 U1_3_megablast.txt:emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 150 9e-34 U1_3_megablast.txt:emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 130 1e-27 U1_3_megablast.txt:emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 150 9e-34 U1_3_megablast.txt:emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 130 1e-27 U1_3_megablast.txt:emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 130 1e-27 U1_3_megablast.txt:emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 130 1e-27 U1_3_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 156 2e-35 U1_3_megablast.txt:emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 150 9e-34 U1_3_megablast.txt:emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 150 9e-34 U1_3_megablast.txt:emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 152 2e-34 U1_3_megablast.txt:emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 124 5e-26 U1_3_megablast.txt:emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 134 9e-29 U1_3_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 145 4e-32 U1_3_megablast.txt:emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 135 2e-29 U1_3_megablast.txt:emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 108 5e-21 U1_3_megablast.txt:emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 137 7e-30 U1_3_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 145 4e-32 U1_3_megablast.txt:emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 145 4e-32 U1_3_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 145 4e-32 U1_3_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 156 2e-35 U1_3_megablast.txt:gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 130 1e-27 U1_3_megablast.txt:ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 100 9e-19 U1_4_megablast.txt:emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 148 3e-33 !"#$%&'& **0&

U1_4_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 148 3e-33 U1_4_megablast.txt:emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 148 3e-33 U1_4_megablast.txt:emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 135 2e-29 U1_4_megablast.txt:emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 135 2e-29 U1_4_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 148 3e-33 U1_4_megablast.txt:emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 135 2e-29 U1_4_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 148 3e-33 U1_4_megablast.txt:emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 148 3e-33 U1_4_megablast.txt:emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 130 1e-27 U1_4_megablast.txt:emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 148 3e-33 U1_4_megablast.txt:emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 135 2e-29 U1_4_megablast.txt:emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 148 3e-33 U1_4_megablast.txt:emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 132 3e-28 U1_4_megablast.txt:emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 148 3e-33 U1_4_megablast.txt:emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 135 2e-29 U1_4_megablast.txt:emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 119 2e-24 U1_4_megablast.txt:emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 148 3e-33 U1_4_megablast.txt:emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 135 2e-29 U1_4_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 143 1e-31 U1_4_megablast.txt:emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 135 2e-29 U1_4_megablast.txt:emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 135 2e-29 U1_4_megablast.txt:emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 135 2e-29 U1_4_megablast.txt:emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 135 2e-29 U1_4_megablast.txt:emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 119 2e-24 U1_4_megablast.txt:emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 143 1e-31 U1_4_megablast.txt:emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 148 3e-33 U1_4_megablast.txt:emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 135 2e-29 U1_4_megablast.txt:emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 130 1e-27 U1_4_megablast.txt:emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 137 6e-30 U1_4_megablast.txt:emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 135 2e-29 U1_4_megablast.txt:emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 130 1e-27 U1_4_megablast.txt:emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 148 3e-33 U1_4_megablast.txt:emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 148 3e-33 U1_4_megablast.txt:emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 135 2e-29 U1_4_megablast.txt:emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 148 3e-33 U1_4_megablast.txt:emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 135 2e-29 U1_4_megablast.txt:emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 135 2e-29 U1_4_megablast.txt:emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 135 2e-29 U1_4_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 148 3e-33 U1_4_megablast.txt:emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 148 3e-33 U1_4_megablast.txt:emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 148 3e-33 U1_4_megablast.txt:emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 148 3e-33 U1_4_megablast.txt:emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 130 1e-27 U1_4_megablast.txt:emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 132 3e-28 U1_4_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 143 1e-31 U1_4_megablast.txt:emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 141 5e-31 U1_4_megablast.txt:emb|CT956002.7| Zebrafish DNA sequence from clone DKEY-220O21... 113 1e-22 U1_4_megablast.txt:emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 143 1e-31 U1_4_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 143 1e-31 U1_4_megablast.txt:emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 132 3e-28 U1_4_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 143 1e-31 U1_4_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 148 3e-33 U1_4_megablast.txt:gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 121 6e-25 U1_5_megablast.txt:emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 93.7 6e-17 U1_5_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 93.7 6e-17 U1_5_megablast.txt:emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 93.7 6e-17 U1_5_megablast.txt:emb|BX000477.13| Zebrafish DNA sequence from clone CH211-59D8... 85.7 2e-14 U1_5_megablast.txt:emb|BX000981.34| Zebrafish DNA sequence from clone DKEY-9P20 ... 93.7 6e-17 U1_5_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 93.7 6e-17 U1_5_megablast.txt:emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 93.7 6e-17 U1_5_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 93.7 6e-17 U1_5_megablast.txt:emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 93.7 6e-17 U1_5_megablast.txt:emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 85.7 2e-14 U1_5_megablast.txt:emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 93.7 6e-17 U1_5_megablast.txt:emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 93.7 6e-17 U1_5_megablast.txt:emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 93.7 6e-17 U1_5_megablast.txt:emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 93.7 6e-17 U1_5_megablast.txt:emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 93.7 6e-17 U1_5_megablast.txt:emb|BX548067.34| Zebrafish DNA sequence from clone DKEY-261O4... 85.7 2e-14 U1_5_megablast.txt:emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 93.7 6e-17 U1_5_megablast.txt:emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 93.7 6e-17 U1_5_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 93.7 6e-17 U1_5_megablast.txt:emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 93.7 6e-17 U1_5_megablast.txt:emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 93.7 6e-17 U1_5_megablast.txt:emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 93.7 6e-17 U1_5_megablast.txt:emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 93.7 6e-17 U1_5_megablast.txt:emb|BX897739.8| Zebrafish DNA sequence from clone CH211-160J2... 85.7 2e-14 U1_5_megablast.txt:emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 85.7 2e-14 U1_5_megablast.txt:emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 93.7 6e-17 U1_5_megablast.txt:emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 93.7 6e-17 U1_5_megablast.txt:emb|BX942815.11| Zebrafish DNA sequence from clone DKEY-26M3 ... 93.7 6e-17 U1_5_megablast.txt:emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 93.7 6e-17 U1_5_megablast.txt:emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 93.7 6e-17 U1_5_megablast.txt:emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 85.7 2e-14 U1_5_megablast.txt:emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 93.7 6e-17 U1_5_megablast.txt:emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 93.7 6e-17 U1_5_megablast.txt:emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 93.7 6e-17 !"#$%&'& **1&

U1_5_megablast.txt:emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 93.7 6e-17 U1_5_megablast.txt:emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 93.7 6e-17 U1_5_megablast.txt:emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 93.7 6e-17 U1_5_megablast.txt:emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 93.7 6e-17 U1_5_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 93.7 6e-17 U1_5_megablast.txt:emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 93.7 6e-17 U1_5_megablast.txt:emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 93.7 6e-17 U1_5_megablast.txt:emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 93.7 6e-17 U1_5_megablast.txt:emb|CR926128.14| Zebrafish DNA sequence from clone DKEY-195O9... 93.7 6e-17 U1_5_megablast.txt:emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 93.7 6e-17 U1_5_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 93.7 6e-17 U1_5_megablast.txt:emb|CT027578.11| Zebrafish DNA sequence from clone DKEY-247I3... 93.7 6e-17 U1_5_megablast.txt:emb|CU457794.12| Zebrafish DNA sequence from clone DKEY-26I24... 93.7 6e-17 U1_5_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 93.7 6e-17 U1_5_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 93.7 6e-17 U1_5_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 93.7 6e-17 U1_7_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 200 2e-48 U1_8_discontiguous_megablast.txt:emb|AL929028.29| Zebrafish DNA sequence from clone CH211-13F6... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 192 5e-46 U1_8_discontiguous_megablast.txt:emb|AL953856.8| Zebrafish DNA sequence from clone DKEY-43F9 i... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 176 4e-41 U1_8_discontiguous_megablast.txt:emb|BX005268.26| Zebrafish DNA sequence from clone DKEY-11L22... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 176 4e-41 U1_8_discontiguous_megablast.txt:emb|BX088712.23| Zebrafish DNA sequence from clone CH211-199H... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX248128.20| Zebrafish DNA sequence from clone CH211-198G... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|BX255935.27| Zebrafish DNA sequence from clone DKEYP-46H4... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX321887.13| Zebrafish DNA sequence from clone DKEY-240B2... 170 2e-39 U1_8_discontiguous_megablast.txt:emb|BX323006.12| Zebrafish DNA sequence from clone CH211-145H... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX323451.12| Zebrafish DNA sequence from clone DKEY-49H9 ... 159 3e-36 U1_8_discontiguous_megablast.txt:emb|BX465195.28| Zebrafish DNA sequence from clone DKEY-246J6... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX510935.28| Zebrafish DNA sequence from clone DKEY-207L2... 165 7e-38 U1_8_discontiguous_megablast.txt:emb|BX571711.8| Zebrafish DNA sequence from clone DKEY-57L19 ... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX571813.8| Zebrafish DNA sequence from clone DKEY-14O6 i... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|BX640584.10| Zebrafish DNA sequence from clone DKEY-78O7 ... 165 7e-38 U1_8_discontiguous_megablast.txt:emb|BX649394.32| Zebrafish DNA sequence from clone DKEY-57C22... 159 3e-36 U1_8_discontiguous_megablast.txt:emb|BX649399.14| Zebrafish DNA sequence from clone DKEY-256I1... 165 7e-38 U1_8_discontiguous_megablast.txt:emb|BX855613.7| Zebrafish DNA sequence from clone CH211-208F2... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|BX908777.15| Zebrafish DNA sequence from clone CH211-133H... 174 1e-40 U1_8_discontiguous_megablast.txt:emb|BX927135.13| Zebrafish DNA sequence from clone DKEY-16P6 ... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|BX928743.21| Zebrafish DNA sequence from clone DKEY-78K22... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|CR356223.21| Zebrafish DNA sequence from clone DKEY-28K24... 174 1e-40 U1_8_discontiguous_megablast.txt:emb|CR356227.44| Zebrafish DNA sequence from clone DKEY-163H1... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|CR381657.7| Zebrafish DNA sequence from clone CH211-229L1... 165 7e-38 U1_8_discontiguous_megablast.txt:emb|CR385078.23| Zebrafish DNA sequence from clone DKEYP-104F... 185 8e-44 U1_8_discontiguous_megablast.txt:emb|CR388165.17| Zebrafish DNA sequence from clone DKEY-16P19... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|CR388172.14| Zebrafish DNA sequence from clone DKEY-28I19... 174 1e-40 U1_8_discontiguous_megablast.txt:emb|CR388206.30| Zebrafish DNA sequence from clone DKEY-19H16... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|CR388390.18| Zebrafish DNA sequence from clone DKEYP-1B4,... 165 7e-38 U1_8_discontiguous_megablast.txt:emb|CR391997.9| Zebrafish DNA sequence from clone CH211-236G1... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|CR450785.10| Zebrafish DNA sequence from clone DKEYP-89E4... 168 6e-39 U1_8_discontiguous_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 183 3e-43 U1_8_discontiguous_megablast.txt:emb|CR759843.7| Zebrafish DNA sequence from clone DKEYP-82B4 ... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|CR759907.30| Zebrafish DNA sequence from clone CH211-209J... 187 2e-44 U1_8_discontiguous_megablast.txt:emb|CR925768.9| Zebrafish DNA sequence from clone DKEY-20L4 i... 192 5e-46 U1_8_discontiguous_megablast.txt:emb|CR954226.10| Zebrafish DNA sequence from clone DKEY-197M7... 174 1e-40 U1_8_discontiguous_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 181 1e-42 U1_8_discontiguous_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 181 1e-42 U1_8_discontiguous_megablast.txt:emb|FP085395.5| Zebrafish DNA sequence from clone CH73-294L19... 159 3e-36 U1_8_discontiguous_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 181 1e-42 U1_8_discontiguous_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 176 4e-41 U1_8_discontiguous_megablast.txt:gb|GQ426765.1| Cynoglossus semilaevis clone Newcyse15 microsa... 181 1e-42 U1_8_discontiguous_megablast.txt:ref|NM_001114710.1| Danio rerio zgc:171474 (zgc:171474), mRNA... 152 5e-34 U1_9_megablast.txt:emb|AL929029.7| Zebrafish DNA sequence from clone CH211-15F21... 46.1 0.005 U1_9_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 38.2 1.2 U1_9_megablast.txt:emb|BX640547.36| Zebrafish DNA sequence from clone DKEY-4J21,... 38.2 1.2 U1_13_megablast.txt:emb|BX004997.17| Zebrafish DNA sequence from clone DKEY-46E6 ... 77.8 3e-12 U1_13_megablast.txt:emb|BX005336.10| Zebrafish DNA sequence from clone DKEY-85K7 ... 77.8 3e-12 U1_13_megablast.txt:emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 77.8 3e-12 U1_13_megablast.txt:emb|CT009705.9| Zebrafish DNA sequence from clone DKEYP-81C5 ... 77.8 3e-12 U1_13_megablast.txt:emb|CU695141.6| Zebrafish DNA sequence from clone CH73-316K5 ... 77.8 3e-12 U1_13_megablast.txt:emb|FP102120.9| Zebrafish DNA sequence from clone CH73-108H4,... 77.8 3e-12 U1_13_megablast.txt:gb|BC153944.1| Danio rerio cDNA clone IMAGE:7231008 77.8 3e-12

6 - The FASTA sequences of FLR used as the queries in blast against NCBI nucleotide collection. >scaffold_70_U1_1_up GGTGCTCACAATCCCACTATCAGCACAAACACAGCCTGCAGGAGGCTGGGACTACACACTATTTATATACACAGGAAGGAGCTTCCAACAAAG CCCCATCAGGTTATTTCGTTTAAAACATACCGAGAGTCTTTCCCATCATGCATTCCTGCATCTGCACAACAAAAGCTAACTGAACGATCACTA TTTTTCATCCATTTAACCTTCTCACATCCCCCAACAAACCAACAGGAAGTTCAAGTAACTCCGACTCAAATCAAACTGCAGCTGAAAACTGTT TGATTCACGTCTGATGTTCACAAAAAAAGAAAAAACAAAACAAAACACAAAGCACACACATTTCCTGCTAACAGCACAACCACTTCCTGTTCC TTTGTTATGTGCTGCTGAACAGTT >scaffold_70_U1_&1_down_4_up !"#$%&'& *+)&

TGCAGGAGGCTGGGACTACACACTATTTATATACACAGGAAGGAGCTTCCAACAAAGCCACATCAGGTTATTTAGTTTTAAAAATACAGAGAG ACTTTCCCATCATGCATTGCTGCATCTGTACAGTAAAAGCTAACTGAAAGATCACAATTTTTCATCCATTTAACCTCCTTAAATCCACCAACA AACCAACAGGAAGTTCAAGTAACTCCAAGTGAAATCAAACTGCAGCTGAAAACCGTTTAATTCACGTCTGATGTTCAGAAAAAAAGAAAAAAA AAAAACACATAAAAGCACACGTTTTCTGCTAACAGCACAACCACTTCCTGTTCCTTTGTTCTCTGCTGCTGAACAGCTTACTGTCCTCCTGCT GCTGCCCCCTACTGTCCTGGAGCAGGAACACTCACTTTAGTGATGATTTCAAGCTACATTCTGCAGCTTCAGATTCATCTCAATGTTTGACTC AGTAGGTCAAACAAAACTATTTGAACCTGTCACTGCTTTTATTGGAGATTCATTCACATCTGGCTCCATTCCATTTCTAATTGCTCTTGGCCG ACTCTCGCTCTTGCCATTTGATTACTCAATGCGAGTCCATTTTTAAACGTCTGCAGCCAGTACCAGGCTTTGGGCATTTCCTCTCTGGGTTGT AAATTTGCTGTACTCTGAATGTTTACCTTGACCAGTGATAACAGTGACAAAGACAAGATCGACTGACCTATCAGAAAACACAGATTAGGGACA ACTCCACCGCACGAGTTTCCGGCAGCTCACAGGGACCAAGAACAAATGCTGCAGCTGGAGTTGAGTTTAGGCCCTTCTGCACATAACAAAGCC TGGACTGCCATGACTGCAGAAGTATGCTTCTTCTTCTTAGAGAGGACATCCAAGCCAGTGGAAGAGAAGTATGTGGTACACCTGAACTAACAA ATATAAACGTCATGCTTGGTGATAGAGCTGGGCGATAGAACGATAACGATATGTATTGCGAAATAACTTTTTCTCGATAGAAAAATGAAACTA TTGCGATAGACCTCATCTCTCTCTCTTCCTCTCTTTAAAAAAAAGAACAGCCAATCCAAATTAAGTAGCGCAGAGCCGAACCAATCACAGTCG CAGCGTCACGTCACGTGACTTGTTATGTACAGCACAAGTGCCAAGCCACACAACAGAGATTTTCTGAGGCTTAATAAACACAAAAACACTAAA TATCTGTTTCTCTGATTTCTTTGAACATGTG >scaffold_70_U1_&2_down_3_up ACCAGTTAGGAAACACAGCGTTTCACTAGCGGTCCCTGGTGGTGCGGAGGGTTAATTGCACTCTTCACACTCCAAATTAAACACCCAGCAAAG AAATTTGGAGGTTAAAACAACAGGTAATAGACGGCAAATCGGTCTGACTACAGATAATTTCTTACGTGTACAGTTTGTAAAATAAAGCAGAGT GAATTAATAACTAATGTGAGGTGTAGACCCTCCATAAAAGTGCCTACAGATTTAACAAAAACACGTGTTAGGGTTTTATTAACCTTAACTCAG CTCCACCACTCTCACACAGCTTGAAGCATGAACACAGTCTATCACTGACAGTAAAGTCCAGATAAAAAGCACTTACAAAAACCTCTGACACTT AATGAATATTCAGTGTATCTGTGTGTTTTGTGTTTCTTTCTTTTCCTTGAATATGTGACTAGGGAGAGCTTAGCTCAGGGGAAGTTAACTGGT GAGTCAGAACTGGGATTTTCAATTAGTTTGTCCTGAGCCAAAGCACACACTAGTGGAGATCAGAGGGAACTACAATTTTCAACTGTACTAGAA AAGTCTCGACTCCTATTTTCCTTAAATCATACAAAGACAAAAACCTCTGAGACTTGAAGAACACTTAATGTCAGTATCTGTGTGTTTGTGTAT TCGTCTGTTTCCTTTGAACACGTGAT >scaffold_70_U1_&3_down AAGATTGTCAAAAAATAATATAAAATAGTGTGCAAATACTGATTACAGTGCAAATGTTTGCAATATAAAAAAATAATTGAAAAATGTAAACAT CTATGTTTAGTGAACTTCAAAATACTGCATAATACTGGTTGTTCACTGTGTTAATTGAGCAGTGGTCTTTGGCGAGGAAAACGTTACCGCGTT TGTTATCTCCTTGTGTCTCTGGGAGCTGGTGGGATATTTAGTCGCGTTGTACAGGGTAGCGTGAATGGAGGTCTGTGAGGATGAAGCAGGTGT TGTTGAGTTTTTCTCTATGTTCCTTCATTGTTTGATCGTATGTCACTTTGTGAGCGGTCTTCAAATGATTGAATAAATTTGTAGTGTTGCTCT GTGGTGCAGCTACGACACCATAGCAAAGTTTCCACACTATGTCTACTTGATCTACGTCTGACTCCGCGAACCCATAATGTTTCCACACCACTG AAGTTGTTTTACCTCTCTTTTCAACCAACAGCATTCTTTCTTCAGCAGCCATTATCCTCTCCTCTCCAAATAACTTCTGCTTAGCTTTCCGAG CTTCCCTCGGCTCCTCTTAATTGTTGTGACACGTGTTCGAAACGCAGAAAGGTGCGCTCGATTTGCCACACGGAGCAGCGCGAGAGTAAAGCA CGAGGGAGGTGCTAATAATCGGTTCAGTCATTTTTAATGATCGTTCAAAGCCCAGATCGTAATCTAGATTAAAATTCGATTAATTGAGCAGCC CTAACTCACTCCATCACAATATTGGGATTTCGTGCTTTCACTCTCTCCATCATGACACACTGTCAGTGCATGTAGCCTGCACATTTCATGTGT TTGTTGATTGGACAGGTTCTTTTTTTTTTTTTCTTCTTTTTTTAAAAATGGTAATTTTCATTCAACATGTTTTGGGGTTTTTTTTTAGCACAA AGCGTGAACACTTCCCTCCAAGAGAGGCTCTATTAGTATATAGAGCCTCTCTTTTCTTTAAACATGTGAT >scaffold_70_U1_4_down TCAGTGTTGGCTTTTTCCAATTCTCATTCTTTATAGTCAACTATAACCCGCTCCGCTCTGATAATGTCTCCGAATGAAGTAGGCTGCACTCAG TCGGTTGATTTTTTGCAGAAGAGAGATTTATCAAACACTCTCTTTAGCTGAGCACACACACAGACTAACAATGAAAGCCTCTGTAAGCAAAGG ACGATAACCACAGTCACTTCTTAGTTTTAGTATTGATTAACCCTGCTAACACAAAGAGCTGGCTAAGCTGCACTTGGCTTGCAGTACACCCCT CAGACTGGAACCTGTTACACTTTGGCTCGTCCCTTGGTTGTAGTTAGGTGGTTTTGAATACGGGTTTATTGGTGGAGATGCCTTTACTGAAGA TATTAAATCAGTCCACAAAAAAATTTTTTTTTTACTTGTTTAGTAGTAGTTATGTTTTAACAATTGAAATTGCTTTGTGGCTGTTGTGATCCA CTTTGTTTGGTCATATTACCGTATTTTATGGTAATATTACTGGGGTTGGAGAGGCTGTAGAGAACAGTACCTACAGGGCTGTGGTAAACATTT GTCAATCTGACATAGTAAAACCTTATGAGTGTTAGATTAGTGCACTTTCAGCTATGTAAGCAAAAATAGTGTTCAAGTCACAAACCTAATGTT GTTTTAATAATAAATAAATAAATAAAACTGCACATTTTAATCTGCAAAATCAAAGATGAGAGGATATTTATTTTTCTCCGTGTGGTGATTTTC AATCAATACTGGACACAGAATGAGAAAGACCTTCAGTAATAAAGTTTAGAGACAAAGTGCAGACCAACTTGAACAGCTCTATCTCCCTTTAGT GGAGAAAAGAGAGAACTAGAAATTGTACTGAACATATGAGCCACAGCAGCCAGTCCTGACATTAATCAAAACACCCACGTTTCCCTGGAATAC TCAATAAGAAAAACCTGTGAATCAGACTGAGTAACTACATTTTTCGGTTTGATTCCTTTGAACATGTGAT >scaffold_70_U1_5_down ATCACATGTTCAAAGAAAACAGACAAAAATACATACCCAGGCAGTCAAGTTCATGATATTTATTAACTCTCAGGGTTTGAACTTGTGTAGTAC AGAGTTAACAGGAGCATCTGCTGTGGCTGAGTTGTTCAGTAGAATCTTGAAGTTCCCACTTTTCTCCACAAGAGGCCAGTAGACTTGTTAGGT GGTGTGTGGTTTGTCTCTGGACTTTGAGGGATGTTATCACGCTTTGTGCTAAAAACGTGTTGAATGAAAATTACCATAAGAAGTTTTAAGTTT ACCAACTTAAGTGTGCTGCTTTCATGGACACACAACAGAAAGATGTTTGGGCTAACTTATAACTGTGAGAACTGTGTGACCTGGGACATCTGT GACTGTTTTCAATGGGAATGAAACCACAAAAATTCAGTGTTGTGAGGAATCACTGTATTTCACGGAGGACTTGCCGATATGGAAAAAAAATCT CATTGTAGTTTTAAATTAGGGCTGCAGAAATTCATCGAGTATGTTGATAATTCGATTATAAAAGGCTTTGCTTCAATGCTTCGTTCAGTGCCC GGCTCTGTAGTTCACCAATGTGTTAAATGATGTAAATGCAAGCATTTCACCCACATTTGCGACTAGAAACAGACCTGCAATACAAACATATTA AGGAGCAGCATGTGAATGAAAAGTTTGACAACATTAAGCAAACACAGGGCCCAGTTTTAAACCAAAACACTGATAACACAGCAGCAGTGACTG TTGTGTTATTAGTGGCCCACTTTAACGTGAAGCTGGAGTCGCTGCTAAGAGACGGAGCTGTTACTGGGACGGTGAACTCAAGTTGAGGAAAAG ACCACATTTCTGGTGTTCAGAACAGGAGCACTGTTCCAATAATCACCACTAAAACCTTTACTGGAAAAAAAACTAGCAGGCGTCTTTCATCAA AGCACCTGATCAACAAAATCCAACATTAAGAAAACTAAACTTTATAGCTGCTTCATCCAGCACCAATTGT >scaffold_207_U1_6_up AAATCGTTCACTTCGCGCATGGGAGAGTCTTTCACACACAAACCCTGCACACTCACGGTTCTCACAATCTCACAATCAACACAAACACATCCT GCAGGGGTCTGGGACTAAATACTGTTTACATACACATGAAGCAGTTTCCAACAGAGCCTCATCAGGTTATTTAGCTTTAAAAATACCGGGAGT CTTTCCCATCATGCATTGCTGCATCTGCGCAACAAGAGCTAGCTGAAAGATCACTTTTTTTCATCCATTTAACCTCCTTAAATCCACCAACAG ACCAACAGGAAGTTCAGCTAACGCAAAGGTCAGGCACGCTGTTAAACGAGTTTATCTGATATTCGGGGGAAAGAGAAAAAACGCAAAAGTTTT CGAGTCGAAGTGCAGTCACTTCCGGTCTCTGCGTTAACTGCTGCTAGGCAACCAACGGTTTCCCGCTACGGTCTCGGAGTAAGAACAGCGCTG !"#$%&'& *+*&

TTCACGAAAACACGTCTGTGAACATGTCCGAGTGCAACAAACAACCAGAAAACAATCCAAATAAAATCACTCCAAAAAATTTACTCATTAACA ACGACTGAATTCACTCAGAGCGAATTTTTGCTTTGGCGAGTTTGTTACCCGCTAAAGATGGCAGGAAGTCTCAAATCACGCGGGTCCGGCGCA CATACACGTGTTAGTACACGTCCTATCGAGTAGTATAAATTATAGTTTAGTTTAATATACCAGAATATTTTTATTTTGGAGTGAAAATTACAA TCACCTCCCTCAGCTAATGACCACAAGAGGAAAATGCAAATGAACTAAAAGTACTCATTAATCCAGACACAAGAACTTTTTGTAGTTTTTAAA AAGTTATTATTTTATCAATATACATATTTTTCCTCAATTCCTCAACACATAAACTCCAAATGCATTAAAAAATATACATAATGGTCGTTGTGA TGTAACCAAATATCAGCGCCCCCTGTTGAATAATTTATGTCACTGCTCATTTTCCCCTCATGCTCGGAAG >scaffold_207_U1_6_down AGGTATGCAACGTTTTCTCGGCCCGAACGACAGCAAACACTTGCACATTAAAAGTTTTTACTGTGAAGGCAAACATTCACGGTTTTGGTTCTG TGGCACTTTTCAGTTTCACTACTGCTCACTGAGAAGTTGGCGAGTGTTTACAGACAAATTGGCGTCCTGCAGGCAAACTACTCAGAACTGCAG CAATCTGCAACCAAAGCTAACACAAGGAGGTTTCTATCTACCTACCAGGGAATACACATTTGCCCAATCGTAGGTCTTTCAGCGACCACTCAG ACTGGAGGCTGGTCTCCAGACCTGTGTGACTAAGGTCATAATTTTTGACCCTACAACTTCACACACCCAGAGTGACGTGCCATGATTAGTCAC ATGACAGCAAAACCTCAATAGCTAACATGTATTTTCAACAGTAAAAACAAACACAGAGCAGCAAACAGCAGCATAGCTACGAAACAGGAAATT TGCAGCTTTATCACATCCACCTCAACTTTGAGGTGACTGCCTCAGAGCTCTTTGTTTTTAAACTTATAGACATGTTTCACTTCCAAAGAGCAT TTCAAACAATAAGAATCTGAATCCAGCGAGCACTCCTACAGAAATACTAACTTTAAATACTGAATGCGGCCAGGCACTGCATTTAAAAGATAA CAAACACATGCAACCCTGATTTAAATGCACCAGACGGACCACCTGGAGTCCAGTTCTGCCCGTGAATCTGGAAAGTGTGAAAACTGTCTCGCT TGCTGCATTGAGCATGTGTATGACAAAAGAATTTCCGTCGGGATAAATAAAGTTCTTGTTATCTTATCTTATCTGTGACGTCTCTGAACATTT ACAGAGCTCTATCGGCCTCTAGCGGAGAAACGAAGAAACTACACGCTACTCAATATAACTCATCTGTCATATCATTTTCACACACTGCGAAAA TGCAAAAGCCTTTGTAGTTCACTAACACCACCAAACAGAAATCCACAATTTCCTTTTAACATGTAATGAA >scaffold_95_U1_7_down CATTATTTTTTTATTCATTTAATGTATATAATGTTCTTCTCTCCCCCTTTGCACAGTCGAGGAGTGTGTCAGGATACATTTCACTGCGTGGTG TACTTGTATAACTACGCATGTGATAATTAAAGAATCTTGAATCTATCTGTGACCATTTATCCTGTATTTAAATATATGATGTTATGGTATAGG TTTATGTTTTTTTTGCTGTCTCCTTAGTTTGCCATAGGGTAATAACTCACAATGTTAATGTGCAAAGATTAATTCAGTTTGTAAACTGGCTGA TATCAGTGCTGCAATTATCAGTGTAAACATCAACCTCAGACATTTTGTATCTTATGCATACATGTACTATAGCAGCAAGGCTCTTTTTCTAAC ACTCTTTTAAACTTCTCAAAATCACCAGCAAGGACAAGTTCAATGAGGGCAAGACCACCTCTACAATAACTAAAACAGTGATGCTAATATAAA ATGCTTTAACCTCACTCAGTCTTATTTTGAATGCCAGGTGTTTGTACTGATGTGATTTTAAGAGTTCAATAGCACTAAACGGTAACAAATTTT TTTATTTTTTTTATTTTTTGCTATTTTTCATGCTAGGTTTAAGAAACAGAGCCTCTAGGGAGGACATTTGAGTGACATGTTTTGCTTTTGTCT TCGTAGTCAGGGCAGAAAAAGAAGATTTCCAAGGTTACTTCACAGAGCAAACAAAAGGCACAACTGTCACAAAAGATCTGCTTCTGAAAAACG AAAACACAACTGGTCATGGCACAGAAGCAATACCTACAGAGAAGACGCATCAACATACCGCAATGGCATTGACTGCCAAGTTTCCAGGGGCGG TCTCGCTTGACACCAGACCGACTCAACCTTATAAGAAAAGTCAAATCACAAAGGCGTCAGCTATAATTTCCCTACTAAGCTCAAAGCATTTTG TCTCCAGAAATGGGAATAGCTCTCTCATATTAAAGAGCGAGCCGTCGGCTATGAGGATTGACACTGAATC >scaffold_95_U1_7_up TCTATTAGGAAATTGATTAGAAAAATTAACATGTTTATACATCTTGAGACCTTTAGATACAAAGTTTCTGTTTTTTTTTTTTTTACATTAACA TGTAGCATTTTCAGTACAATTAATTGTATTGTTGCCATATAGTCAGATTTTCTGATACATATTGTGTAAAAATCCTTATTGAATTCTTTCATC TTCTAACCCATGACCATGTAGTTGTGACTGTAAAGAGGGAGGATTACTGTGAAATCTAATCCACGTATAAATGAACTTCAGAGGACAAAAGCT CCCTGCATGGGATGACACCATCTGCTAGTAACTGCAAACAGCTGATACCTTCTGCTCAGGTGGATTAAACAGTAATAAGAGCATTTAATCACT GGGACTGATAAATCGCAAACAAGACAGAACAGAAATGAAAACGCTTCACTGTTTTATACTAGGACTCTTTCTGCTTCCAGGTATGTACTCACA GTTGGGTTTATTTTCTCAGTATAGCAACTTAACTTAATGGGAAGCCCGGTATACTACAGATTTAATCATTTCTATGTTAGATACAATATGTTT GTTTTTTACAGTTTGCAGCTATATATAAACTGTATAACTGTACGCATATATGAGCTGTAAAGTTGTAATAATTAAAATTTTGAAAATATTAAA GCAATATTAAAAAAATACAGAAAAGATTATTTATTTGTTCATCTGAAGAAAGTACCAATATAAAAACAGCAAAAAGTAGTCTACAGAGTAGAA TAAAGATGCTGAAAATAATAAAATAAAATAGCAGCTCTTTGAATAAATTAAAAGAATTTTCCTCACATATTTATTTAATTGTGTATCATGCCT GGTAGATGGATGTATACATAAATAATATTCTCGCTCTTACTTAGCATTTTAATTTTAAAGTAATGACTTAAATCAGGAATACATTCATAAGTT AAGACGTATTACATTCATACTTTGTTTAGCTTTATGATCATGTTTTAATATAATCAATATTAATTGATTT >scaffold_255_U1_8_up GAGTGGGAAATAGCCAGGCAGGGGGGTGGGTTTCAGCCACATACGAGTCAGCCTGACGGTGTTACGGAAATAAGCAGCAACACAGTGTTTAGT GGAACACGATCATAATTTAAAATCTAACTCGTTCACCAAATGATTAATGCTATTTTATTGACATGTAATAGTTAATTTGAAAGTTAAATAGGC TGAGATTTTCCCATGATGCTTTGCCGCAATGTATGGGTTTGACCGCAATTGGTTTGACGTCGCAGCTTACTTCCGGTCAGCGAGCGTTTTATT TTTAAAAAGTTTTGCAAATCATTATACAAACACTAGCATTGAATGAGCAGTCATTCATGTTATATATTCTGCAAGCGTCCAAAATTATAACAC TAACGTGATAAGTGAGGCTTTTCTTTTTAACTGTGGTTTCATTCAGCCATATCGACCCGGTGACTATTAACAGGTGTTTCCCCAGCTTTGCCC ACAAAAGTTGAATACAACTGGCATAAAACGTTAAGAAAAAAATCAATACACTGTAAAACAAGTCCATATGGGACAAAACATGCGTCGACATTC GTCTATTTTACGAATAAACTGCTCCAGCAATGTCATGCTAGCATGGCTGTAAGAGTACTGTGAGTTTTGGCGCCATCTAGTGGACTACCAAAC ACACAGACAAGCTAATGTGCATGTGCAGTAGGCCTGGTGCTGTGAGCCCAGTGAACACACGGCTATTTTGCATAAACGCAAATATTGAATAAA AGTCATCTGACGTTTAAACAAGAGCTTGTTTTGTGAAGTTAAGCCATCAACTTGCACAGTTTTAGCTGCCATAAATGATCCCATACTCGCACA CATTGAAAACAGTATAAACGGCTACTAATTAGCAGAGGAGACCTACATTATCTGACACCTGGTGACGCACAAGCTTACCAGCCTGTTAACTTA ATTAGTACCCCGAAAGAAAAGTTAAGTTACAGCAGGGGTTATTAATGACTTATTAATCACCGGCTTACCC >scaffold_255_U1_8_down ATGTGTCTACTGTCTCAGTGGCTGATAGTGCCCCACAGGCCTCAGTGTGAGCTTGAAGCCACTATAATGTTGAAGTTGTTTAATGTGTAGGTG CTCACGATAAACAGATTTTGAATGAAAGCCAGGGAACTTCGGTAGCACAAAAACAGTGTCTATTCTTTGTGGACATATGGAACAGTCCCTCTT CTTACCATTATTTCCCCTTAAGGTGTTTCCAAAGGCACCGTGTTAATGCCAGAAAAAAGCTGCAGCCATACACAAAAACATAAACATTTTTCT ATTTACTTGGTTATAACTTTGCTTTTAGTCTCTAATCAGAAAGCCTTAAGTTGGCTAGTTAAGTATCGGGCTAACGTTTAAAGCTTTCACTTG AGTGAAGTAACTCACATTACTGTTACTGCTAAGTAATGTTGGCTAAGTTCACAGCATATTTCATACATCACCACGCCATAACTAACTGCTATA ACAGCGCTGCCATATTGTATCATACTCAGTGCACTTCAATCATCATAGCAAAACAATTATTTAGAAAAATTAGCATGTGTAACGTACACACAC TGGAAAATTATGTACTAGGGCTTACGCAAAGTCCCCCTCGTGAAAAGGTGCAAATCCTTTTCGCAGACCTTTCAGGTGGATTTATTCCTTGTG TTATCCATGATTTGTATTTGTCGTTTTCCAGCAAACAGTCATTAAAATAGCAACCTCCAGGCATGTTAGTGCACTTAGAAGTCGAGTCTACGG TAGTGCGACTGTTCGGCAGACTGACATGCAGAGGAGCAAGGCAGCCCAGGCGGAGAAATTTTGCTTTTAGACTTTGCGACTCATTTTATAGCT GAAGAAAACTATTCAAGTGAATGAAATACGGTTATAGTTTCAAGTAGTTTTAACCACCACATCCGAAATCCAAACACTCTTCAAGGATTTCGA !"#$%&'& *++&

TCATCGGTGAAACCCCGATTACCACTGTGCTTTCAGAATTAGCCTTTTTTTTATTTTTTTACACGTTATT >scaffold_358_U1_9_up TGTGGGGAATTCACAGGGGTCAGCACAACCGCAGTGCAATGGCTGAGCCTCGCCCTGGGCGAACCTATTTTCTATTTTCTATTTTCAAAATTT TTTTATTGTTCATAACACAAAAAAACAGTACAAATTCTTAAACTTTGAACAAAAACAAAAAAATGCAAAGAAGGAAATCCACAAACTCTCCAA TGAATAAGAATAAAAATAAAATTAAACTTTAAAAATTAAAGATTTCCATAAGGGGTCCCATATTTCAATTTTTTCCAACTAAACAATCATATT TTTTTATGCACCTTTCTTCAAAGGCATATTTTCTCTCAGAAAATAATCATTCAACAAGGTAAGAGCACTATTTACCACAACTCGTGCAGATAT TTCATATTTTTTAAAAACACAAATATTTCTCGCTCTCCATAATGCGTCTTTCACACAATTCACAATTATCCACCAACGGTCTTCCTCTCCCCC CCCCTTGCCCTTCAAAATCCCATACATTATACACTCATATGTTAGATCTCCTTTATATAACTCTTTCAACCGGAGTCGTAGTAAACACCACAC CTTCTTAGCAAAGGGACATTCCCAAAACAAGTGCTTAACCGTCTCGTCATTTCCACATCTCAACCTTGGGCACTGTGCACTCTTCGTGCATGC TCTTGCTTTCAAAAACGCTCTTGTAGGCAAGCATTCCAATACTGCCTGCCAAGCTAAGTCTTTATGAATATTTAACAAAACCTTATTGTTAAC GTTAAGCCATGCCATTTTACATAGGTTTTCTGGAAGTTTCCCTACTGGAGTCATTCTATCCGTTGAAAATAATAGTTCTTCAATATTAGACCT GGTTATAGCCTGGGGCATAATTTGAAATGAAAAACACTTTAATGATTTTATCACTATGTCATAGACTACTGGATATTGGTCAGAAAAGGGGGT ACTAAGGGGGCATCTCCTGCCCCATGCATTCAAAACTCTCTGTCCAATCCAAAATCTTGTAAAATAAGGC >scaffold_358_U1_&10_up_11_down ACCACACAAAGGAAACCTACTACAGTCTTTTCACCTGGTGCTGTACAACAAAAGAAGCGTGGAAAACAACCCACCACCTACGGTCCCACAGCC GCTGGTAGATCCTCCGTCCACTACAATAAAAATACAGAACATACACATTAAAAGGTGAAAAACATGGGACACAAACAGGCTCTCAACCTACAA AACAAAAAAAAGAAAC >scaffold_358_U1_11_up ACTCTACTGAATCAATGTGGCCATATTTCACAACATTTTGGGTTGGTCAGAGAGTTTTGAAGGCACGGGGCATGTGATGCTCCCTTAGTACAC CTTTCTCTGAACAATACCCCGCTGTTTATGACATAGTAATCAAATCACTAAAGTGTTTTTCAACCCAGATCACACCCCAGGCTATAAGTTTGG CCAAATTAGAGGAAATATTATTTCCAACAGACAGAATGACTCCAGTAGGGAAACTTCCTGGAAACCTTTGTAAAATAGCATGGGCTAATGTTA ATAACAAGATATTGTTAAATACTCATAAAGATTTAGCGTGGCAAGCCGTTCTTGAATGTCTACCCACAAGAGCCTTTTTGAAGACAAGAGAGT GCACGAGGAGTCCGCGGTGCCCAAGAATGAGATGTGGAGGTGACGAGACGGTTAGACATTTGTTTTGGGAATGCCCCTTTGCTAAGAAGGTAT GGTGTTTATTGCGACACCGGTTGAAAGAGCTATATAAGTGGGATTTAAGATATGAATGTATAATGTATGGGGTTTTGAAAGGTAGTGGGGGGA GAGGGAAAGATTGTTGGTGGATAACAGTAAATTGTGTTAAAGATGCATTATGGAGGGTGAGAAACATTTGTGTTTTTAAAAAATATGAAATTC CTGCAAGAGTTGTAATAAATAGTACCTTTAATTTGTTGAACGATTACTTTATGGGAAGATATCCTTTTGGAGAAGGGAGTAAAACAAAGTGTA TGGACATTAGTTGAATGATAGAATATGGGACCTTTTTTGTTGGACCTCTTTTATTTATTTATTTTATTTTTTATTTTTGAGGTGTTTGTGGCT TTGATGTATCCCTTTTCTCTCTTCAAATGCTGAGAATTTGTATAACACTTCTGTAATGAACAATAAAAAATCTTGAAAATTGAAAATTGGTTC ACCCAGACCCACCATGACAGGTTCCAGGAGGAATGTTGTACCATTTGAGTTGCAAGGAAATTGTGAAATG >scaffold_358_U1_12_up GAGTTGGCAGTGTGGGAGACAGGGGTCCCCTTTCCACATGCAGCACTCTGGCTGATGGTGCCTAGCACGCATAATGC >scaffold_358_U1_12_down GTTGAAGGAAGCGCGAGGTCTGGGGTACTTAAAAAAACTTCCATCTCTTCCTGAATAGTTTCAGTTCTATTGGACTCTCTAACATTACCTGCT TGACAAGATGAACTCCCAGCTGGTTCACCGTCCTGGTCAGCCCCGGTTTGGTTCACAACGGCTTCCAGCTGAAGTTCATTACCTTGATTGTGA CCTCTATCCACATCCGTTGGTGCAGAATTCCCTGTTACCACTGGAATTTCTTCTGCTTGCTGAACCTGGGGCATTCTCAACCTATTTGCGTAA GACTGTGGGCATGACCTAAAGGTATGATCTTCTTTCCCACATAAATTACAATTTTTTGGGTAAGGGCAATCCTTTATAATATGTTCACCACTT TTACAGTTCCTACAAACGACGTTAACACACTCCATGGCCAAGTGGTCATTAGAACCACACTTACGACATGTCTTAGGCTGCCCCGGATAAAAA ACATATCCTCTAATTGCCCCCAATTGAATAATTGGGGGCAGGTGCATCAGTTCTCCAGAGTTCTCATCTCTTTTCAGATGTACATAGAAGCGA TATGCTCCAGTTCGAATCCCATCTTCGTCCTTTAAATCCAATCCTCTTAACACCGAACATTTAAAGGACAACCATGTTTTAATATCTTCGACT CTCACATACTCTGAATGCATAATCACAGTCACAGCTTTAGGCTCCCTGCCTGATAGTGGAGTCATCTTGATATGAGCCAGCTGGGGGCTGGAT TGTCTCTTTCTATTGAAGATGTTAATACAGGACTCATACAAAGTTGACGTGGCAAAAATCACTTCATAAGTTCTTCTTCCAGGCAAGCCAAAA ATATAATCCAACTGGTTAGGTGAAAAACCCAGTTCCTTCTGAATAACAGTCCTACTAAACTGCAATCGATCCATTTCACAAACCTCTTGTAGC TCAAATCGTACAGCGTTCCGCCTGGAACCTGCCATGCTAACAGTAGCATCAGATGTCGTCATCCTGCGTG >scaffold_123_U1_13_up CAGAAATTTTGCCATGAGCAGGATTCGAACCCTGCCCTCCTGGTCTCAAAGCAGCTAGTCATCTCACTGAGCCAAACTCATTCTCGAGGGTGA ACCAATTTCAATTTTCAAAGAATTTTATTGTTCAAAAACAAAATTACATCAATTCACTCATAACATAAACCATCAAGATACAAAAAGGCCCAA ATGGGGA >scaffold_123_U1_13_down GTTCTTAGAAAAACTTCCATCTCTTCCTGAATAGTTTCAATTCTATTAGACTCTTTAACATTTCCTGCTTGGCAAGATGAGCTCCCAGCTGGT TCACCGTCCTGATCAGCCCCCGTTTGGTTCCCAACGGCTTCCAGCTGAGGTTCATTACTCTGATTGTAACCTCTATCCGCATTCGTTGGTGCA GAATTCCCTGTTACCACTGGAGTTTCTTCTGCTTGCTGAACCTGGGGCATTCTCAACCTATTTGCGTAAGACTGTGGGCATGACCTAAAGGTA TGATCTTCTTTCCCACATAAATTACAATTTTTTGGGTAAGGGCAATCTTTTATAATATGTTCACCACTTTTACAGTTCCTACAAACCACATTG ACACACTCCATGGTCAGGTGGTCATTAGAACCACACTTACGACATGTCTTAGGCTGCCCCGGATAAAAAACATATCCTCTAATTGCCCCCAAT TGAATAATTGGGGGCAGGTGCATCAGTTCTCCAGAGTTCTCATCTCTTTTCAGGTGTACATAGAAGCGATATGCTCCAGTTCGAATCCCATCT TCGTCTTTTAAATCCAATCCTCTTAACACCGAACATTTAAAGGACAGCCATGTTTTAATATCTTCGACTCTCACATACTCTGAATGCATAATC ACAGTCACTGCTTTAGGCTCTCTGCCTGATAATGGAGTCATCTTGATATGAGCCAGCTGGGGGCTGGATTGTCTCTTTCTATTGAAGATGTTA ATACAAGACTCATACAAAGTTGTCGTGGCAAAAATCACTTCATAAATTCTTCTTCCAGGCAAGCCAAAAATGTAATCCAACTGGTTAGGTGAA AAGCCCAGTTCCTTCTGAATAACAGTCCTACTAAACTGCAATCGATCCATTTCACAAACCTCTTGTAGCTCAAAACGTACAGCGATCTGCCTG GAGCCTGCCATGCTAACAGTAGCATCAGATGTCATCATCATCATGGGGGGGGAACCATCTCCGTTGGATG

7 – Some blast results using FLRs as the queries against NCBI. Query= scaffold_70_U1_&3_down Megablast Score E !"#$%&'& *+,&

Sequences producing significant alignments: (Bits) Value gb|EF594315.1| Astatotilapia burtoni clone BAC 32B18 Hoxda ge... 198 5e-47

Query= scaffold_70_U1_1_down_4_up Megablast Score E Sequences producing significant alignments: (Bits) Value gb|EF594311.1| Astatotilapia burtoni clone BAC 150O18 Hoxab g... 224 9e-55

Query= scaffold_358_U1_9_up Megablast Score E Sequences producing significant alignments: (Bits) Value emb|CR713323.2| Tetraodon nigroviridis full-length cDNA 100 2e-17

Query= scaffold_95_U1_7_down Discontinous_megablast Score E Sequences producing significant alignments: (Bits) Value gb|AC236448.1| Xenopus laevis clone CH219-263A24, complete se... 95.1 1e-16 gb|AC236439.1| Xenopus laevis clone CH219-140F21, complete se... 95.1 1e-16 gb|BC097570.1| Xenopus laevis Uncharacterized protein C17orf5... 71.6 2e-09

8 - The FASTA sequences of FLRU used at Giri. Blue bases represents the putative U1 copies. >scaffold_123_U1_13 GTTCTTAGAAAAACTTCCATCTCTTCCTGAATAGTTTCAATTCTATTAGACTCTTTAACATTTCCTGCTTGGCAAGATGAGCTCCCAGCTGGT TCACCGTCCTGATCAGCCCCCGTTTGGTTCCCAACGGCTTCCAGCTGAGGTTCATTACTCTGATTGTAACCTCTATCCGCATTCGTTGGTGCA GAATTCCCTGTTACCACTGGAGTTTCTTCTGCTTGCTGAACCTGGGGCATTCTCAACCTATTTGCGTAAGACTGTGGGCATGACCTAAAGGTA TGATCTTCTTTCCCACATAAATTACAATTTTTTGGGTAAGGGCAATCTTTTATAATATGTTCACCACTTTTACAGTTCCTACAAACCACATTG ACACACTCCATGGTCAGGTGGTCATTAGAACCACACTTACGACATGTCTTAGGCTGCCCCGGATAAAAAACATATCCTCTAATTGCCCCCAAT TGAATAATTGGGGGCAGGTGCATCAGTTCTCCAGAGTTCTCATCTCTTTTCAGGTGTACATAGAAGCGATATGCTCCAGTTCGAATCCCATCT TCGTCTTTTAAATCCAATCCTCTTAACACCGAACATTTAAAGGACAGCCATGTTTTAATATCTTCGACTCTCACATACTCTGAATGCATAATC ACAGTCACTGCTTTAGGCTCTCTGCCTGATAATGGAGTCATCTTGATATGAGCCAGCTGGGGGCTGGATTGTCTCTTTCTATTGAAGATGTTA ATACAAGACTCATACAAAGTTGTCGTGGCAAAAATCACTTCATAAATTCTTCTTCCAGGCAAGCCAAAAATGTAATCCAACTGGTTAGGTGAA AAGCCCAGTTCCTTCTGAATAACAGTCCTACTAAACTGCAATCGATCCATTTCACAAACCTCTTGTAGCTCAAAACGTACAGCGATCTGCCTG GAGCCTGCCATGCTAACAGTAGCATCAGATGTCATCATCATCATGGGGGGGGAACCATCTCCGTTGGATGAACCACCTTCGTGATCATGGTGT CTCCCCTGCCAGGTAAGTATCAGAAATTTTGCCATGAGCAGGATTCGAACCCTGCCCTCCTGGTCTCAAAGCAGCTAGTCATCTCACTGAGCC AAACTCATTCTCGAGGGTGAACCAATTTCAATTTTCAAAGAATTTTATTGTTCAAAAACAAAATTACATCAATTCACTCATAACATAAACCAT CAAGATACAAAAAGGCCCAAATGGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN >scaffold_207_U1_6_ AGGTATGCAACGTTTTCTCGGCCCGAACGACAGCAAACACTTGCACATTAAAAGTTTTTACTGTGAAGGCAAACATTCACGGTTTTGGTTCTG TGGCACTTTTCAGTTTCACTACTGCTCACTGAGAAGTTGGCGAGTGTTTACAGACAAATTGGCGTCCTGCAGGCAAACTACTCAGAACTGCAG CAATCTGCAACCAAAGCTAACACAAGGAGGTTTCTATCTACCTACCAGGGAATACACATTTGCCCAATCGTAGGTCTTTCAGCGACCACTCAG ACTGGAGGCTGGTCTCCAGACCTGTGTGACTAAGGTCATAATTTTTGACCCTACAACTTCACACACCCAGAGTGACGTGCCATGATTAGTCAC ATGACAGCAAAACCTCAATAGCTAACATGTATTTTCAACAGTAAAAACAAACACAGAGCAGCAAACAGCAGCATAGCTACGAAACAGGAAATT TGCAGCTTTATCACATCCACCTCAACTTTGAGGTGACTGCCTCAGAGCTCTTTGTTTTTAAACTTATAGACATGTTTCACTTCCAAAGAGCAT TTCAAACAATAAGAATCTGAATCCAGCGAGCACTCCTACAGAAATACTAACTTTAAATACTGAATGCGGCCAGGCACTGCATTTAAAAGATAA CAAACACATGCAACCCTGATTTAAATGCACCAGACGGACCACCTGGAGTCCAGTTCTGCCCGTGAATCTGGAAAGTGTGAAAACTGTCTCGCT TGCTGCATTGAGCATGTGTATGACAAAAGAATTTCCGTCGGGATAAATAAAGTTCTTGTTATCTTATCTTATCTGTGACGTCTCTGAACATTT ACAGAGCTCTATCGGCCTCTAGCGGAGAAACGAAGAAACTACACGCTACTCAATATAACTCATCTGTCATATCATTTTCACACACTGCGAAAA !"#$%&'& *+-&

TGCAAAAGCCTTTGTAGTTCACTAACACCACCAAACAGAAATCCACAATTTCCTTTTAACATGTAATGAAGGGAGAGCGCGAACGCAGTCCCC ACTATCAGAAATTATGCAGTCGAGATTCCCACATTTGGGGAATTCGCAGGCTATCAGCAAAGCCAGAGTGCAATGGCTGAGCCTCGGCCTGAG AGAACCACCTTCTTGATCATAGTATCTCTCCTGCCAGGTAAGTATAAATCGTTCACTTCGCGCATGGGAGAGTCTTTCACACACAAACCCTGC ACACTCACGGTTCTCACAATCTCACAATCAACACAAACACATCCTGCAGGGGTCTGGGACTAAATACTGTTTACATACACATGAAGCAGTTTC CAACAGAGCCTCATCAGGTTATTTAGCTTTAAAAATACCGGGAGTCTTTCCCATCATGCATTGCTGCATCTGCGCAACAAGAGCTAGCTGAAA GATCACTTTTTTTCATCCATTTAACCTCCTTAAATCCACCAACAGACCAACAGGAAGTTCAGCTAACGCAAAGGTCAGGCACGCTGTTAAACG AGTTTATCTGATATTCGGGGGAAAGAGAAAAAACGCAAAAGTTTTCGAGTCGAAGTGCAGTCACTTCCGGTCTCTGCGTTAACTGCTGCTAGG CAACCAACGGTTTCCCGCTACGGTCTCGGAGTAAGAACAGCGCTGTTCACGAAAACACGTCTGTGAACATGTCCGAGTGCAACAAACAACCAG AAAACAATCCAAATAAAATCACTCCAAAAAATTTACTCATTAACAACGACTGAATTCACTCAGAGCGAATTTTTGCTTTGGCGAGTTTGTTAC CCGCTAAAGATGGCAGGAAGTCTCAAATCACGCGGGTCCGGCGCACATACACGTGTTAGTACACGTCCTATCGAGTAGTATAAATTATAGTTT AGTTTAATATACCAGAATATTTTTATTTTGGAGTGAAAATTACAATCACCTCCCTCAGCTAATGACCACAAGAGGAAAATGCAAATGAACTAA AAGTACTCATTAATCCAGACACAAGAACTTTTTGTAGTTTTTAAAAAGTTATTATTTTATCAATATACATATTTTTCCTCAATTCCTCAACAC ATAAACTCCAAATGCATTAAAAAATATACATAATGGTCGTTGTGATGTAACCAAATATCAGCGCCCCCTGTTGAATAATTTATGTCACTGCTC ATTTTCCCCTCATGCTCGGAAG >scaffold_255_U1_8_plus scaffold_255 ATGTGTCTACTGTCTCAGTGGCTGATAGTGCCCCACAGGCCTCAGTGTGAGCTTGAAGCCACTATAATGTTGAAGTTGTTTAATGTGTAGGTG CTCACGATAAACAGATTTTGAATGAAAGCCAGGGAACTTCGGTAGCACAAAAACAGTGTCTATTCTTTGTGGACATATGGAACAGTCCCTCTT CTTACCATTATTTCCCCTTAAGGTGTTTCCAAAGGCACCGTGTTAATGCCAGAAAAAAGCTGCAGCCATACACAAAAACATAAACATTTTTCT ATTTACTTGGTTATAACTTTGCTTTTAGTCTCTAATCAGAAAGCCTTAAGTTGGCTAGTTAAGTATCGGGCTAACGTTTAAAGCTTTCACTTG AGTGAAGTAACTCACATTACTGTTACTGCTAAGTAATGTTGGCTAAGTTCACAGCATATTTCATACATCACCACGCCATAACTAACTGCTATA ACAGCGCTGCCATATTGTATCATACTCAGTGCACTTCAATCATCATAGCAAAACAATTATTTAGAAAAATTAGCATGTGTAACGTACACACAC TGGAAAATTATGTACTAGGGCTTACGCAAAGTCCCCCTCGTGAAAAGGTGCAAATCCTTTTCGCAGACCTTTCAGGTGGATTTATTCCTTGTG TTATCCATGATTTGTATTTGTCGTTTTCCAGCAAACAGTCATTAAAATAGCAACCTCCAGGCATGTTAGTGCACTTAGAAGTCGAGTCTACGG TAGTGCGACTGTTCGGCAGACTGACATGCAGAGGAGCAAGGCAGCCCAGGCGGAGAAATTTTGCTTTTAGACTTTGCGACTCATTTTATAGCT GAAGAAAACTATTCAAGTGAATGAAATACGGTTATAGTTTCAAGTAGTTTTAACCACCACATCCGAAATCCAAACACTCTTCAAGGATTTCGA TCATCGGTGAAACCCCGATTACCACTGTGCTTTCAGAATTAGCCTTTTTTTTATTTTTTTACACGTTATTAGGGGAAAGCGCGTACGCAGTCC CCACTACCATAAATTGTGCAGTTGAGATTCCCACATTTGAGGAATTCACAGAGGTCAGAACTGCCTGTGTGCAATGGCAAAGCCTCACTCTGG ACGAACCACCTTCATGATCATGGTATCATCCCTGCCAGGTAAGTATGAGTGGGAAATAGCCAGGCAGGGGGGTGGGTTTCAGCCACATACGAG TCAGCCTGACGGTGTTACGGAAATAAGCAGCAACACAGTGTTTAGTGGAACACGATCATAATTTAAAATCTAACTCGTTCACCAAATGATTAA TGCTATTTTATTGACATGTAATAGTTAATTTGAAAGTTAAATAGGCTGAGATTTTCCCATGATGCTTTGCCGCAATGTATGGGTTTGACCGCA ATTGGTTTGACGTCGCAGCTTACTTCCGGTCAGCGAGCGTTTTATTTTTAAAAAGTTTTGCAAATCATTATACAAACACTAGCATTGAATGAG CAGTCATTCATGTTATATATTCTGCAAGCGTCCAAAATTATAACACTAACGTGATAAGTGAGGCTTTTCTTTTTAACTGTGGTTTCATTCAGC CATATCGACCCGGTGACTATTAACAGGTGTTTCCCCAGCTTTGCCCACAAAAGTTGAATACAACTGGCATAAAACGTTAAGAAAAAAATCAAT ACACTGTAAAACAAGTCCATATGGGACAAAACATGCGTCGACATTCGTCTATTTTACGAATAAACTGCTCCAGCAATGTCATGCTAGCATGGC TGTAAGAGTACTGTGAGTTTTGGCGCCATCTAGTGGACTACCAAACACACAGACAAGCTAATGTGCATGTGCAGTAGGCCTGGTGCTGTGAGC CCAGTGAACACACGGCTATTTTGCATAAACGCAAATATTGAATAAAAGTCATCTGACGTTTAAACAAGAGCTTGTTTTGTGAAGTTAAGCCAT CAACTTGCACAGTTTTAGCTGCCATAAATGATCCCATACTCGCACACATTGAAAACAGTATAAACGGCTACTAATTAGCAGAGGAGACCTACA TTATCTGACACCTGGTGACGCACAAGCTTACCAGCCTGTTAACTTAATTAGTACCCCGAAAGAAAAGTTAAGTTACAGCAGGGGTTATTAATG ACTTATTAATCACCGGCTTACCC >scaffold_358_U1_10_11_plus NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCAGTCCCCCACTACCACAAAT TATGCAGTTGAGATTCCCGCATGTGGGGAATTCACAGGGGTCAGCACAACCACACAAAGGAAACCTACTACAGTCTTTTCACCTGGTGCTGTA CAACAAAAGAAGCGTGGAAAACAACCCACCACCTACGGTCCCACAGCCGCTGGTAGATCCTCCGTCCACTACAATAAAAATACAGAACATACA CATTAAAAGGTGAAAAACATGGGACACAAACAGGCTCTCAACCTACAAAACAAAAAAAAGAAACAACGCAGTCCCCCACTACCACAAATTATG CAGTTGAGATTCCTGCATTTGGGGAATTCACAGGGGACTCTACTGAATCAATGTGGCCATATTTCACAACATTTTGGGTTGGTCAGAGAGTTT TGAAGGCACGGGGCATGTGATGCTCCCTTAGTACACCTTTCTCTGAACAATACCCCGCTGTTTATGACATAGTAATCAAATCACTAAAGTGTT TTTCAACCCAGATCACACCCCAGGCTATAAGTTTGGCCAAATTAGAGGAAATATTATTTCCAACAGACAGAATGACTCCAGTAGGGAAACTTC CTGGAAACCTTTGTAAAATAGCATGGGCTAATGTTAATAACAAGATATTGTTAAATACTCATAAAGATTTAGCGTGGCAAGCCGTTCTTGAAT GTCTACCCACAAGAGCCTTTTTGAAGACAAGAGAGTGCACGAGGAGTCCGCGGTGCCCAAGAATGAGATGTGGAGGTGACGAGACGGTTAGAC ATTTGTTTTGGGAATGCCCCTTTGCTAAGAAGGTATGGTGTTTATTGCGACACCGGTTGAAAGAGCTATATAAGTGGGATTTAAGATATGAAT GTATAATGTATGGGGTTTTGAAAGGTAGTGGGGGGAGAGGGAAAGATTGTTGGTGGATAACAGTAAATTGTGTTAAAGATGCATTATGGAGGG TGAGAAACATTTGTGTTTTTAAAAAATATGAAATTCCTGCAAGAGTTGTAATAAATAGTACCTTTAATTTGTTGAACGATTACTTTATGGGAA GATATCCTTTTGGAGAAGGGAGTAAAACAAAGTGTATGGACATTAGTTGAATGATAGAATATGGGACCTTTTTTGTTGGACCTCTTTTATTTA TTTATTTTATTTTTTATTTTTGAGGTGTTTGTGGCTTTGATGTATCCCTTTTCTCTCTTCAAATGCTGAGAATTTGTATAACACTTCTGTAAT GAACAATAAAAAATCTTGAAAATTGAAAATTGGTTCACCCAGACCCACCATGACAGGTTCCAGGAGGAATGTTGTACCATTTGAGTTGCAAGG !"#$%&'& *+.&

AAATTGTGAAATG >scaffold_358_U1_12_plus GTTGAAGGAAGCGCGAGGTCTGGGGTACTTAAAAAAACTTCCATCTCTTCCTGAATAGTTTCAGTTCTATTGGACTCTCTAACATTACCTGCT TGACAAGATGAACTCCCAGCTGGTTCACCGTCCTGGTCAGCCCCGGTTTGGTTCACAACGGCTTCCAGCTGAAGTTCATTACCTTGATTGTGA CCTCTATCCACATCCGTTGGTGCAGAATTCCCTGTTACCACTGGAATTTCTTCTGCTTGCTGAACCTGGGGCATTCTCAACCTATTTGCGTAA GACTGTGGGCATGACCTAAAGGTATGATCTTCTTTCCCACATAAATTACAATTTTTTGGGTAAGGGCAATCCTTTATAATATGTTCACCACTT TTACAGTTCCTACAAACGACGTTAACACACTCCATGGCCAAGTGGTCATTAGAACCACACTTACGACATGTCTTAGGCTGCCCCGGATAAAAA ACATATCCTCTAATTGCCCCCAATTGAATAATTGGGGGCAGGTGCATCAGTTCTCCAGAGTTCTCATCTCTTTTCAGATGTACATAGAAGCGA TATGCTCCAGTTCGAATCCCATCTTCGTCCTTTAAATCCAATCCTCTTAACACCGAACATTTAAAGGACAACCATGTTTTAATATCTTCGACT CTCACATACTCTGAATGCATAATCACAGTCACAGCTTTAGGCTCCCTGCCTGATAGTGGAGTCATCTTGATATGAGCCAGCTGGGGGCTGGAT TGTCTCTTTCTATTGAAGATGTTAATACAGGACTCATACAAAGTTGACGTGGCAAAAATCACTTCATAAGTTCTTCTTCCAGGCAAGCCAAAA ATATAATCCAACTGGTTAGGTGAAAAACCCAGTTCCTTCTGAATAACAGTCCTACTAAACTGCAATCGATCCATTTCACAAACCTCTTGTAGC TCAAATCGTACAGCGTTCCGCCTGGAACCTGCCATGCTAACAGTAGCATCAGATGTCGTCATCCTGCGTGAACCACCTTCGTGATCATGGTAT CGCCCCTGCCAGGTAAGTATGAGTTGGCAGTGTGGGAGACAGGGGTCCCCTTTCCACATGCAGCACTCTGGCTGATGGTGCCTAGCACGCATA ATGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN >scaffold_358_U1_9_plus ACCACAAATTATGCAGTTGAGATTCCCGCATGTGGGGAATTCACAGGGGTCAGCACAACCGCAGTGCAATGGCTGAGCCTCGCCCTGGGCGAA CCTATTTTCTATTTTCTATTTTCAAAATTTTTTTATTGTTCATAACACAAAAAAACAGTACAAATTCTTAAACTTTGAACAAAAACAAAAAAA TGCAAAGAAGGAAATCCACAAACTCTCCAATGAATAAGAATAAAAATAAAATTAAACTTTAAAAATTAAAGATTTCCATAAGGGGTCCCATAT TTCAATTTTTTCCAACTAAACAATCATATTTTTTTATGCACCTTTCTTCAAAGGCATATTTTCTCTCAGAAAATAATCATTCAACAAGGTAAG AGCACTATTTACCACAACTCGTGCAGATATTTCATATTTTTTAAAAACACAAATATTTCTCGCTCTCCATAATGCGTCTTTCACACAATTCAC AATTATCCACCAACGGTCTTCCTCTCCCCCCCCCTTGCCCTTCAAAATCCCATACATTATACACTCATATGTTAGATCTCCTTTATATAACTC TTTCAACCGGAGTCGTAGTAAACACCACACCTTCTTAGCAAAGGGACATTCCCAAAACAAGTGCTTAACCGTCTCGTCATTTCCACATCTCAA CCTTGGGCACTGTGCACTCTTCGTGCATGCTCTTGCTTTCAAAAACGCTCTTGTAGGCAAGCATTCCAATACTGCCTGCCAAGCTAAGTCTTT ATGAATATTTAACAAAACCTTATTGTTAACGTTAAGCCATGCCATTTTACATAGGTTTTCTGGAAGTTTCCCTACTGGAGTCATTCTATCCGT TGAAAATAATAGTTCTTCAATATTAGACCTGGTTATAGCCTGGGGCATAATTTGAAATGAAAAACACTTTAATGATTTTATCACTATGTCATA GACTACTGGATATTGGTCAGAAAAGGGGGTACTAAGGGGGCATCTCCTGCCCCATGCATTCAAAACTCTCTGTCCAATCCAAAATCTTGTAAA ATAAGGC >scaffold_70_U1_1_4_plus TCAGTGTTGGCTTTTTCCAATTCTCATTCTTTATAGTCAACTATAACCCGCTCCGCTCTGATAATGTCTCCGAATGAAGTAGGCTGCACTCAG TCGGTTGATTTTTTGCAGAAGAGAGATTTATCAAACACTCTCTTTAGCTGAGCACACACACAGACTAACAATGAAAGCCTCTGTAAGCAAAGG ACGATAACCACAGTCACTTCTTAGTTTTAGTATTGATTAACCCTGCTAACACAAAGAGCTGGCTAAGCTGCACTTGGCTTGCAGTACACCCCT CAGACTGGAACCTGTTACACTTTGGCTCGTCCCTTGGTTGTAGTTAGGTGGTTTTGAATACGGGTTTATTGGTGGAGATGCCTTTACTGAAGA TATTAAATCAGTCCACAAAAAAATTTTTTTTTTACTTGTTTAGTAGTAGTTATGTTTTAACAATTGAAATTGCTTTGTGGCTGTTGTGATCCA CTTTGTTTGGTCATATTACCGTATTTTATGGTAATATTACTGGGGTTGGAGAGGCTGTAGAGAACAGTACCTACAGGGCTGTGGTAAACATTT GTCAATCTGACATAGTAAAACCTTATGAGTGTTAGATTAGTGCACTTTCAGCTATGTAAGCAAAAATAGTGTTCAAGTCACAAACCTAATGTT GTTTTAATAATAAATAAATAAATAAAACTGCACATTTTAATCTGCAAAATCAAAGATGAGAGGATATTTATTTTTCTCCGTGTGGTGATTTTC AATCAATACTGGACACAGAATGAGAAAGACCTTCAGTAATAAAGTTTAGAGACAAAGTGCAGACCAACTTGAACAGCTCTATCTCCCTTTAGT GGAGAAAAGAGAGAACTAGAAATTGTACTGAACATATGAGCCACAGCAGCCAGTCCTGACATTAATCAAAACACCCACGTTTCCCTGGAATAC TCAATAAGAAAAACCTGTGAATCAGACTGAGTAACTACATTTTTCGGTTTGATTCCTTTGAACATGTGATCAGGGGAGAGCGCGAACGCAGTC CCCCACTACCAGAAATTATGCAGTCGAGATTCCCACATTTGGGGAATTCGCAGGGGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NTGCAGGAGGCTGGGACTACACACTATTTATATACACAGGAAGGAGCTTCCAACAAAGCCACATCAGGTTATTTAGTTTTAAAAATACAGAGA GACTTTCCCATCATGCATTGCTGCATCTGTACAGTAAAAGCTAACTGAAAGATCACAATTTTTCATCCATTTAACCTCCTTAAATCCACCAAC AAACCAACAGGAAGTTCAAGTAACTCCAAGTGAAATCAAACTGCAGCTGAAAACCGTTTAATTCACGTCTGATGTTCAGAAAAAAAGAAAAAA AAAAAACACATAAAAGCACACGTTTTCTGCTAACAGCACAACCACTTCCTGTTCCTTTGTTCTCTGCTGCTGAACAGCTTACTGTCCTCCTGC TGCTGCCCCCTACTGTCCTGGAGCAGGAACACTCACTTTAGTGATGATTTCAAGCTACATTCTGCAGCTTCAGATTCATCTCAATGTTTGACT CAGTAGGTCAAACAAAACTATTTGAACCTGTCACTGCTTTTATTGGAGATTCATTCACATCTGGCTCCATTCCATTTCTAATTGCTCTTGGCC GACTCTCGCTCTTGCCATTTGATTACTCAATGCGAGTCCATTTTTAAACGTCTGCAGCCAGTACCAGGCTTTGGGCATTTCCTCTCTGGGTTG TAAATTTGCTGTACTCTGAATGTTTACCTTGACCAGTGATAACAGTGACAAAGACAAGATCGACTGACCTATCAGAAAACACAGATTAGGGAC AACTCCACCGCACGAGTTTCCGGCAGCTCACAGGGACCAAGAACAAATGCTGCAGCTGGAGTTGAGTTTAGGCCCTTCTGCACATAACAAAGC CTGGACTGCCATGACTGCAGAAGTATGCTTCTTCTTCTTAGAGAGGACATCCAAGCCAGTGGAAGAGAAGTATGTGGTACACCTGAACTAACA AATATAAACGTCATGCTTGGTGATAGAGCTGGGCGATAGAACGATAACGATATGTATTGCGAAATAACTTTTTCTCGATAGAAAAATGAAACT ATTGCGATAGACCTCATCTCTCTCTCTTCCTCTCTTTAAAAAAAAGAACAGCCAATCCAAATTAAGTAGCGCAGAGCCGAACCAATCACAGTC GCAGCGTCACGTCACGTGACTTGTTATGTACAGCACAAGTGCCAAGCCACACAACAGAGATTTTCTGAGGCTTAATAAACACAAAAACACTAA !"#$%&'& *+/&

ATATCTGTTTCTCTGATTTCTTTGAACATGTGAGCGCGAACGCAGTCCCCCACTACCAGAAATTATGCAGTCGAGATTCCCACATTTGGGGAA TTCGCAGGGGTCAGCACAACCGGAGTGCAATGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGTGCTCACAATCC CACTATCAGCACAAACACAGCCTGCAGGAGGCTGGGACTACACACTATTTATATACACAGGAAGGAGCTTCCAACAAAGCCCCATCAGGTTAT TTCGTTTAAAACATACCGAGAGTCTTTCCCATCATGCATTCCTGCATCTGCACAACAAAAGCTAACTGAACGATCACTATTTTTCATCCATTT AACCTTCTCACATCCCCCAACAAACCAACAGGAAGTTCAAGTAACTCCGACTCAAATCAAACTGCAGCTGAAAACTGTTTGATTCACGTCTGA TGTTCACAAAAAAAGAAAAAACAAAACAAAACACAAAGCACACACATTTCCTGCTAACAGCACAACCACTTCCTGTTCCTTTGTTATGTGCTG CTGAACAGTT >scaffold_70_U1_2_3_plus AAGATTGTCAAAAAATAATATAAAATAGTGTGCAAATACTGATTACAGTGCAAATGTTTGCAATATAAAAAAATAATTGAAAAATGTAAACAT CTATGTTTAGTGAACTTCAAAATACTGCATAATACTGGTTGTTCACTGTGTTAATTGAGCAGTGGTCTTTGGCGAGGAAAACGTTACCGCGTT TGTTATCTCCTTGTGTCTCTGGGAGCTGGTGGGATATTTAGTCGCGTTGTACAGGGTAGCGTGAATGGAGGTCTGTGAGGATGAAGCAGGTGT TGTTGAGTTTTTCTCTATGTTCCTTCATTGTTTGATCGTATGTCACTTTGTGAGCGGTCTTCAAATGATTGAATAAATTTGTAGTGTTGCTCT GTGGTGCAGCTACGACACCATAGCAAAGTTTCCACACTATGTCTACTTGATCTACGTCTGACTCCGCGAACCCATAATGTTTCCACACCACTG AAGTTGTTTTACCTCTCTTTTCAACCAACAGCATTCTTTCTTCAGCAGCCATTATCCTCTCCTCTCCAAATAACTTCTGCTTAGCTTTCCGAG CTTCCCTCGGCTCCTCTTAATTGTTGTGACACGTGTTCGAAACGCAGAAAGGTGCGCTCGATTTGCCACACGGAGCAGCGCGAGAGTAAAGCA CGAGGGAGGTGCTAATAATCGGTTCAGTCATTTTTAATGATCGTTCAAAGCCCAGATCGTAATCTAGATTAAAATTCGATTAATTGAGCAGCC CTAACTCACTCCATCACAATATTGGGATTTCGTGCTTTCACTCTCTCCATCATGACACACTGTCAGTGCATGTAGCCTGCACATTTCATGTGT TTGTTGATTGGACAGGTTCTTTTTTTTTTTTTCTTCTTTTTTTAAAAATGGTAATTTTCATTCAACATGTTTTGGGGTTTTTTTTTAGCACAA AGCGTGAACACTTCCCTCCAAGAGAGGCTCTATTAGTATATAGAGCCTCTCTTTTCTTTAAACATGTGATCAGGGGAGAGCGCGAATGCAGTC CCCCACTACCAGAAATTATGCAGTCGAGATTCCCACATTTGGGGAATTCGCAGGGGTCAGCACAACCAGTTAGGAAACACAGCGTTTCACTAG CGGTCCCTGGTGGTGCGGAGGGTTAATTGCACTCTTCACACTCCAAATTAAACACCCAGCAAAGAAATTTGGAGGTTAAAACAACAGGTAATA GACGGCAAATCGGTCTGACTACAGATAATTTCTTACGTGTACAGTTTGTAAAATAAAGCAGAGTGAATTAATAACTAATGTGAGGTGTAGACC CTCCATAAAAGTGCCTACAGATTTAACAAAAACACGTGTTAGGGTTTTATTAACCTTAACTCAGCTCCACCACTCTCACACAGCTTGAAGCAT GAACACAGTCTATCACTGACAGTAAAGTCCAGATAAAAAGCACTTACAAAAACCTCTGACACTTAATGAATATTCAGTGTATCTGTGTGTTTT GTGTTTCTTTCTTTTCCTTGAATATGTGACTAGGGAGAGCTTAGCTCAGGGGAAGTTAACTGGTGAGTCAGAACTGGGATTTTCAATTAGTTT GTCCTGAGCCAAAGCACACACTAGTGGAGATCAGAGGGAACTACAATTTTCAACTGTACTAGAAAAGTCTCGACTCCTATTTTCCTTAAATCA TACAAAGACAAAAACCTCTGAGACTTGAAGAACACTTAATGTCAGTATCTGTGTGTTTGTGTATTCGTCTGTTTCCTTTGAACACGTGATCAG GGGAGAGCGCGAACGCAGTCCCCCACTACCAGAAATTATGCAGTCGAGATTCCCACATTTGGGGAATTCGCAGGGGTCAGCACAACCNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN >scaffold_70_U1_5_plus NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACTGCATAATTTCTGGTAGTGGG GGACTGCGTTCGCGCTCTCCCCTGATCACATGTTCAAAGAAAACAGACAAAAATACATACCCAGGCAGTCAAGTTCATGATATTTATTAACTC TCAGGGTTTGAACTTGTGTAGTACAGAGTTAACAGGAGCATCTGCTGTGGCTGAGTTGTTCAGTAGAATCTTGAAGTTCCCACTTTTCTCCAC AAGAGGCCAGTAGACTTGTTAGGTGGTGTGTGGTTTGTCTCTGGACTTTGAGGGATGTTATCACGCTTTGTGCTAAAAACGTGTTGAATGAAA ATTACCATAAGAAGTTTTAAGTTTACCAACTTAAGTGTGCTGCTTTCATGGACACACAACAGAAAGATGTTTGGGCTAACTTATAACTGTGAG AACTGTGTGACCTGGGACATCTGTGACTGTTTTCAATGGGAATGAAACCACAAAAATTCAGTGTTGTGAGGAATCACTGTATTTCACGGAGGA CTTGCCGATATGGAAAAAAAATCTCATTGTAGTTTTAAATTAGGGCTGCAGAAATTCATCGAGTATGTTGATAATTCGATTATAAAAGGCTTT GCTTCAATGCTTCGTTCAGTGCCCGGCTCTGTAGTTCACCAATGTGTTAAATGATGTAAATGCAAGCATTTCACCCACATTTGCGACTAGAAA CAGACCTGCAATACAAACATATTAAGGAGCAGCATGTGAATGAAAAGTTTGACAACATTAAGCAAACACAGGGCCCAGTTTTAAACCAAAACA !"#$%&'& *+(&

CTGATAACACAGCAGCAGTGACTGTTGTGTTATTAGTGGCCCACTTTAACGTGAAGCTGGAGTCGCTGCTAAGAGACGGAGCTGTTACTGGGA CGGTGAACTCAAGTTGAGGAAAAGACCACATTTCTGGTGTTCAGAACAGGAGCACTGTTCCAATAATCACCACTAAAACCTTTACTGGAAAAA AAACTAGCAGGCGTCTTTCATCAAAGCACCTGATCAACAAAATCCAACATTAAGAAAACTAAACTTTATAGCTGCTTCATCCAGCACCAATTG T >scaffold_95_U1_7_plus TCTATTAGGAAATTGATTAGAAAAATTAACATGTTTATACATCTTGAGACCTTTAGATACAAAGTTTCTGTTTTTTTTTTTTTTACATTAACA TGTAGCATTTTCAGTACAATTAATTGTATTGTTGCCATATAGTCAGATTTTCTGATACATATTGTGTAAAAATCCTTATTGAATTCTTTCATC TTCTAACCCATGACCATGTAGTTGTGACTGTAAAGAGGGAGGATTACTGTGAAATCTAATCCACGTATAAATGAACTTCAGAGGACAAAAGCT CCCTGCATGGGATGACACCATCTGCTAGTAACTGCAAACAGCTGATACCTTCTGCTCAGGTGGATTAAACAGTAATAAGAGCATTTAATCACT GGGACTGATAAATCGCAAACAAGACAGAACAGAAATGAAAACGCTTCACTGTTTTATACTAGGACTCTTTCTGCTTCCAGGTATGTACTCACA GTTGGGTTTATTTTCTCAGTATAGCAACTTAACTTAATGGGAAGCCCGGTATACTACAGATTTAATCATTTCTATGTTAGATACAATATGTTT GTTTTTTACAGTTTGCAGCTATATATAAACTGTATAACTGTACGCATATATGAGCTGTAAAGTTGTAATAATTAAAATTTTGAAAATATTAAA GCAATATTAAAAAAATACAGAAAAGATTATTTATTTGTTCATCTGAAGAAAGTACCAATATAAAAACAGCAAAAAGTAGTCTACAGAGTAGAA TAAAGATGCTGAAAATAATAAAATAAAATAGCAGCTCTTTGAATAAATTAAAAGAATTTTCCTCACATATTTATTTAATTGTGTATCATGCCT GGTAGATGGATGTATACATAAATAATATTCTCGCTCTTACTTAGCATTTTAATTTTAAAGTAATGACTTAAATCAGGAATACATTCATAAGTT AAGACGTATTACATTCATACTTTGTTTAGCTTTATGATCATGTTTTAATATAATCAATATTAATTGATTTATCATGAAGGTGGTTCATCCAGG GCGAGGCTCAGCCATTGCACTGCGGTTGTGCTGACCCCTGTGAATTCCCCAAATGCGGGTATCTCAACTGCATAATTTGTGGTAGTGGGGGAC TGCGTTCGTGCTCTCCCCTCATTATTTTTTTATTCATTTAATGTATATAATGTTCTTCTCTCCCCCTTTGCACAGTCGAGGAGTGTGTCAGGA TACATTTCACTGCGTGGTGTACTTGTATAACTACGCATGTGATAATTAAAGAATCTTGAATCTATCTGTGACCATTTATCCTGTATTTAAATA TATGATGTTATGGTATAGGTTTATGTTTTTTTTGCTGTCTCCTTAGTTTGCCATAGGGTAATAACTCACAATGTTAATGTGCAAAGATTAATT CAGTTTGTAAACTGGCTGATATCAGTGCTGCAATTATCAGTGTAAACATCAACCTCAGACATTTTGTATCTTATGCATACATGTACTATAGCA GCAAGGCTCTTTTTCTAACACTCTTTTAAACTTCTCAAAATCACCAGCAAGGACAAGTTCAATGAGGGCAAGACCACCTCTACAATAACTAAA ACAGTGATGCTAATATAAAATGCTTTAACCTCACTCAGTCTTATTTTGAATGCCAGGTGTTTGTACTGATGTGATTTTAAGAGTTCAATAGCA CTAAACGGTAACAAATTTTTTTATTTTTTTTATTTTTTGCTATTTTTCATGCTAGGTTTAAGAAACAGAGCCTCTAGGGAGGACATTTGAGTG ACATGTTTTGCTTTTGTCTTCGTAGTCAGGGCAGAAAAAGAAGATTTCCAAGGTTACTTCACAGAGCAAACAAAAGGCACAACTGTCACAAAA GATCTGCTTCTGAAAAACGAAAACACAACTGGTCATGGCACAGAAGCAATACCTACAGAGAAGACGCATCAACATACCGCAATGGCATTGACT GCCAAGTTTCCAGGGGCGGTCTCGCTTGACACCAGACCGACTCAACCTTATAAGAAAAGTCAAATCACAAAGGCGTCAGCTATAATTTCCCTA CTAAGCTCAAAGCATTTTGTCTCCAGAAATGGGAATAGCTCTCTCATATTAAAGAGCGAGCCGTCGGCTATGAGGATTGACACTGAATC

9 - The search in Giri using FLRU as queries.

10 – Figure with the overlapping of U1 copies and U1_LV. Box – Details of U1_9 and its upstream sequence. Fasta sequence of new_U1 identified by Giri analysis and alignment with other U1 copies. >new_U1 TGGGGAATTCACAGGGGTCAGCACAACCGCAGTGCAATGGCTGAGCCTCGCCCTGGGCGAACC

11 – Table with the regions excluded in the figure 1. Excluded region Length bp Ns% *1 2,487,110 8.5 *2 5,358 - *3 8,775 41.6 *4 347,696 3.8 *5 12,499 48.3 !"#$%&'& *+0&

*6 40,976 32.1 *7 695 - *8 80,097 12.4 *9 879 - *10 494,954 21.4 *11 2,922 9.7 *12 2,727 100.0 *13 460,045 11.8 *14 1,008,802 5.0 *15 214,520 12.3 *16 1,854,771 11.0 *17 909,117 2.8 *18 842,433 1.5 *19 59,446 29.8 *20 2,318,285 20.5 *21 7,167 42.0