heterodontus underlay baboon mouse rat 1 50k 100k 150k

200k Evx1

250k HoxA13 HoxA11 HOXA9

300k HoxA6 HoxA4

HoxA3 350k HoxA1 419666 100% baboon 50% mouse

rat heterodontus

0k 2k 4k 6k 8k 10k 12k 14k 16k 18k 20k

baboon

mouse

rat heterodontus

20k 22k 24k 26k 28k 30k 32k 34k 36k 38k 40k

baboon

mouse

rat heterodontus

40k 42k 44k 46k 48k 50k 52k 54k 56k 58k 60k

baboon

mouse

rat heterodontus

60k 62k 64k 66k 68k 70k 72k 74k 76k 78k 80k 100% baboon 50% mouse

rat heterodontus

80k 82k 84k 86k 88k 90k 92k 94k 96k 98k 100k

baboon

mouse

rat heterodontus

100k 102k 104k 106k 108k 110k 112k 114k 116k 118k 120k

baboon

mouse

rat heterodontus

120k 122k 124k 126k 128k 130k 132k 134k 136k 138k 140k

baboon

mouse

rat heterodontus

140k 142k 144k 146k 148k 150k 152k 154k 156k 158k 160k 100% baboon 50% mouse

rat heterodontus

160k 162k 164k 166k 168k 170k 172k 174k 176k 178k 180k

Evx1 3 2 1

baboon

mouse

rat heterodontus

180k 182k 184k 186k 188k 190k 192k 194k 196k 198k 200k

baboon

mouse

rat heterodontus

200k 202k 204k 206k 208k 210k 212k 214k 216k 218k 220k

HoxA13 1 2

baboon

mouse

rat heterodontus

220k 222k 224k 226k 228k 230k 232k 234k 236k 238k 240k HoxA11 HOXA10 1 2 1

100% baboon 50% mouse

rat heterodontus

240k 242k 244k 246k 248k 250k 252k 254k 256k 258k 260k

HOXA10 HOXA9 1 2 1 1 2

baboon

mouse

rat heterodontus

260k 262k 264k 266k 268k 270k 272k 274k 276k 278k 280k

HoxA7 HoxA6 HoxA5 1 2 1 2 1 2

baboon

mouse

rat heterodontus

280k 282k 284k 286k 288k 290k 292k 294k 296k 298k 300k HoxA4 1 2

100% baboon 50% mouse

rat heterodontus

300k 302k 304k 306k 308k 310k 312k 314k 316k 318k 320k

HoxA3 HoxA2 1 2 1 2

baboon

mouse

rat heterodontus

320k 322k 324k 326k 328k 330k 332k 334k 336k 338k 340k

HoxA1 1 2

baboon

mouse

rat heterodontus

340k 342k 344k 346k 348k 350k 352k 354k 356k 358k 360k

baboon

mouse

rat heterodontus

360k 362k 364k 366k 368k 370k 372k 374k 376k 378k 380k 100% baboon 50% mouse

rat heterodontus

380k 382k 384k 386k 388k 390k 392k 394k 396k 398k 400k

baboon

mouse

rat heterodontus

400k 402k 404k 406k 408k 410k 412k 414k 416k 418k 419666 •190847 194241 (0; LocusLink) ☞ •236992 237230 (3; PubMed) Mortlock DP,Nelson MR, Innis JW.Anefficient method for isolat- ing putative promoters and 5’-transcribed sequences from large ge- nomic clones. Genome Res. 1996 Apr;6(4):327-35. ☞ •236992 237230 (2; Regulatory) ☞ •237195 239074 (1; PubMed) Mortlock DP,Innis JW.Mutation of HOXA13 in hand-foot-genital syndrome. Nat Genet. 1997 Feb;15(2):179-80. ☞ •237195 239074 (0; LocusLink) ☞ •247979 251338 (0; PubMed) Potter SS, Branford WW.Evolutionary conservation and tissue-spe- cific processing of Hoxa 11 antisense transcripts.Mamm Genome. 1998 Oct;9(10):799-806. ☞ •252128 254476 (0; LocusLink) ☞ •257288 266675 (0; PubMed) Eklund EA, Jalava A,Kakar R. Tyrosine phosphorylation of HoxA10 decreases DNAbinding and transcriptional repression during inter- feron gamma -induced differentiation of myeloid leukemia cell lines. JBiol Chem. 2000 Jun 30;275(26):20117-26. ☞ Thorsteinsdottir U, Sauvageau G, Hough MR, Dragowska W,Lans- dorp PM, Lawrence HJ, Largman C, Humphries RK. Overexpression of HOXA10 in murine hematopoietic cells perturbs both myeloid and lymphoid differentiation and leads to acute myeloid leukemia. Mol Cell Biol. 1997 Jan;17(1):495-505. ☞ Satokata I, Benson G, Maas R. Sexually dimorphic sterility pheno- types in Hoxa10-deficient mice. ☞ LowneyP,Corral J, Detmer K, LeBeau MM, DeavenL,Lawrence HJ, Largman C.A human Hox 1 homeobox gene exhibits myeloid- specific expression of alternative transcripts in human hematopoietic cells. Nucleic Acids Res. 1991 Jun 25;19(12):3443-9. ☞ •257288 266675 (1; LocusLink) ☞ •267622 273669 (0; PubMed) Kim MH, Chang HH, Shin C, Cho M, Park D, Park HW.Genomic structure and sequence analysis of human HOXA-9. DNACell Bi- ol. 1998 May;17(5):407-14. ☞ BorrowJ,Shearman AM, Stanton VP,Becher R, Collins T,Williams AJ, Dube I, Katz F,Kwong YL, Morris C, Ohyashiki K, Toyama K, RowleyJ,Housman DE. The t(7;11)(p15;p15) translocation in acute myeloid leukaemia fuses the genes for nucleoporin NUP98 and class Ihomeoprotein HOXA9. ☞ Nakamura T,Largaespada DA, Lee MP,Johnson LA, Ohyashiki K, To yama K, Chen SJ, Willman CL, Chen IM, FeinbergAP, Jenkins NA,Copeland NG, Shaughnessy JD Fusion of the nucleoporin gene NUP98 to HOXA9 by the chromosome translocation t(7;11)(p15;p15) in human myeloid leukaemia. Nat Genet. 1996 Feb;12(2):154-8. ☞ •267622 273669 (1; LocusLink) ☞ •276207 279363 (0; Regulatory) corresponds to HoxA7 enhancer containing homeobox sitesA con- served cluster of homeodomain binding sites in the mouse Hoxa-4 intronfunctions in Drosophila embryos as an enhancer that is directly regulated byUltrabithorax.Haerry TE, Gehring WJ.DevBiol. 1997 Jun 1;186(1):1-15. ☞ full text ☞ Min W,Cho M, Jang SI, Chang HH, Lee CS, Jun MH, Kim MH. Se- quence and functional analysis of an upstream regulatory region of human HOXA7 gene. Gene. 1996 Dec 5;182(1-2):1-6. ☞ corresponds to mus regulatory region Parikh H, Shah S, Hilt D, Pe- terkofskyA.Organization, sequence and regulation of expression of the murine Hoxa-7 gene.Gene. 1995 Mar 10;154(2):237-42. ☞ •280595 282491 (0; LocusLink) ☞ •280595 282491 (1; PubMed) McIlhatton MA, Bremner P,McMullin MF,Maxwell AP,Winter PC, Lappin TR Sequence characterisation and expression of homeobox HOXA7inthe multi-potential erythroleukaemic cell line TF-1. Biochim Biophys Acta. 1998 Nov8;1442(2-3):329-33. ☞ •289523 291614 (0; LocusLink) ☞ •293665 295437 (1; PubMed) Tournier-LasserveE,Odenwald WF,Garbern J, Trojanowski J, Laz- zarini RA. Remarkable intron and exon sequence conservation in hu- man and mouse homeobox Hox 1.3 genes. Mol Cell Biol. 1989 May;9(5):2273-8. ☞ •293665 295437 (0; LocusLink) ☞ •302440 306484 (0; Regulatory) HOXA4 Promoter ☞ •302440 306484 (1; PubMed) HOXA4 intronic enhancer containing homeobox sites A conserved cluster of homeodomain binding sites in the mouse Hoxa-4 intron- functions in Drosophila embryos as an enhancer that is directly regu- lated byUltrabithorax. Haerry TE, Gehring WJ. DevBiol. 1997 Jun 1;186(1):1-15. ☞ full text ☞ Doerksen LF,Bhattacharya A, Kannan P,Pratt D, TainskyMAFunc- tional interaction between a RARE and an AP-2 binding site in the regulation of the human HOXA4gene promoter.Nucleic Acids Res. 1996 Jul 15;24(14):2849-56. ☞ •306539 308047 (0; PubMed) Buettner R, Yim SO, Hong YS, Boncinelli E, TainskyMA. Alter- ation of homeobox gene expression by N-ras transformation of PA-1 human teratocarcinoma cells. Mol Cell Biol. 1991 Jul;11(7):3573-83. %url" •306539 308047 (1; LocusLink) ☞ •326632 329357 (0; LocusLink) ☞ •332190 332933 (0; Regulatory) corresponds to region of mus HoxA2 enhancer Frasch M, Chen X, Lufkin T.Evolutionary-conserved enhancers direct region-specific expression of the murine Hoxa-1 and Hoxa-2 loci in both mice and Drosophila. Development. 1995 Apr;121(4):957-74. ☞ •332252 332260 (1; Regulatory) NonchevS,Vesque C, Maconochie M, Seitanidou T,Ariza-Mc- Naughton L, Frain M,Marshall H, Sham MH, Krumlauf R, Charnay P.Segmental expression of Hoxa-2 in the hindbrain is directly regu- lated byKrox-20.Development. 1996 Feb;122(2):543-54. Abstract ☞ full text ☞ •334772 336546 (0; LocusLink) ☞ •341360 342832 (1; LocusLink) ☞ •341360 342832 (2; Regulatory) abstract ☞ full text ☞ •341360 342832 (0; PubMed) Hong YS, Kim SY,Bhattacharya A, Pratt DR, Hong WK, Tainsky MA.Structure and function of the HOXA1human homeobox gene cDNA. Gene. 1995 Jul 4;159(2):209-14. ☞ Chariot A, Moreau L, Senterre G, Sobel ME, Castronovo V.Retinoic acid induces three newly cloned HOXA1 transcripts in MCF7 breast cancer cells. Biochem Biophys Res Commun. 1995 Oct 13;215(2):713-20. ☞ •345520 346073 (0; Regulatory) This site corresponds to a known regulatory region of mus HoxA1 enhancer Frasch M, Chen X, Lufkin T.Evolutionary-conserved en- hancers direct region-specific expression of the murine Hoxa-1 and Hoxa-2 loci in both mice and Drosophila. Development. 1995 Apr;121(4):957-74. ☞ Langston AW, Thompson JR, Gudas LJ.Retinoic acid-responsive en- hancers located 3’ of the Hox A and Hox B homeoboxgene clusters. Functional analysis.J Biol Chem. 1997 Jan 24;272(4):2167-75. Ab- stract ☞ full text ☞

Annotations legend

·· LocusLink : Blue ·· Regulatory : Orange ·· NCBI : Green ·· PubMed : Red

Underlays legend

·· repeat : Gray ·· exon : Red ·· intron : LightYellow ·· EST : LightGreen ·· UTR : LightOrange ·· AP1 : LightPurple ·· antisense : Blue ·· promoter : LightRed ·· enhancer : LightPink