All Markers on RH Panel

Table 1 ECA1Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number Horse Human symbol size (bp) 1CA16 microsatellite 1q F: TCACTGGGGGGTATATGCAT 121 3.0 58 AF043200 R: GATCCTACTCCACCTGAAGTGG 1CA20 microsatellite 1q13 F: TGGACAAAATGCAAAAGTCA 194 1.5 50 AF043202 R TCCACTACACAGGAAAACGAA 1CA22 microsatellite 1 F: TGGGCAAGAGGACAAATAGC 208 3.0 58 AF043204 R: TGGCAGCCTTGGTTTGTACT 1CA24 microsatellite 1 F: AGATATTGGGGGCGGAAG 205 3.0 58 AF179211 R: TGGAGGTCAACTGGCTATCTC 1CA25 microsatellite 1q17.3 F: TCCAATTTTCCCCAATGGTA 206 3.0 58 AF043205 R: CTGCATTTTGACAATGGTGG 1CA28 microsatellite 1 F: CCTACGCCCACACTCACATA 213 1.5 58 AF043208 R: TGGACTTTCTTACCCCCAAA 1CA30 microsatellite 1p16 F: TGGGGAGGGGTTGTTCTAG 130 3.0 58 AF043209 R: GCTCTCCACTGCATGCATAA 1CA32 microsatellite 1 F: AGTTACCAAATGTCGCATTGC 107 1.5 58 AF043210 R: TTCATCTGTAAAATGGGCAGG 1CA40 microsatellite 1 F: TTGAAAGCCGTGTTTTTGTG 226 1.5 58 AF043213 R: ACCCCATGTTCTGACAAGGA 1CA41 microsatellite 1q15-q16 F: CTGGTCAGGCCTATTACCCA 245 1.5 58 AF043214 R: AGATATTGGGGGCGGAAG 1CA43 microsatellite 1q17.1- F: ATGGCATGATTTGCTTCTCC 122 1.5 58 AF043215 q17.3 R. TGGAAACAACCTAAATGTCCA 1CA44 microsatellite 1p16 F: GGCAGCACACCAAATCAAGT 203 2.0 58 AF043216 R: TCCTGCAAAACAACAGAGGA AHT021 microsatellite 1q14-q15 F: TCCAAGTTGCTGAATGGATC 199-215 2.0 58 Swinburne et al. 1997 R: ACGGCCTGATTCTCTCTTTG AHT040 microsatellite 1q15-q16 F: GCAAGTTCAGCACCTCCCT 230 2.0 58 Swinburne et al. 2000 AJ271525 R: TTTATGACACCTGCTGAGAACG AHT058 microsatellite 1 F: CAGTGATGAGCCGCAAATAG 163-198 2.0 58 Swinburne et al. 2003 AJ507675 R: TCTACCTATAATCCGCCTCCC ANXA2 annexin A2 1q21.3- 15q21- F: GTGGGGATGACTGAAGCCTGT 234 3.0 58 Fetal cDNA library G62155 q22 q22 R: CACTGCCAACTCCTTGGAATGT EST#912 ANXA7 annexin A7 1 10q21.1- F: GCCGTCCTCACAGTCTTAT 856 3.0 58 Testis cDNA library q21.2 R: GAGCTTGACCTCCAGGATA #AM004_F05 ASB08 microsatellite 1q16-q17 F: GACAACGTGGCAGCTCACTGCC 143 3.0 TD64 Breen et al. 1997 X95323 R: GCAAGTAAGCCATATGTGCATGCG ASB12 microsatellite 1q12-q13 F: TCAGCAATAGAAGCCAGCTCC 170 3.0 65 Breen et al. 1997 X95327 R: TCCTATGGAGGTGACCTTCCC ASB41 microsatellite 1p14 F: AAAGTTCACTTAGTCCTTGG 129-159 3.0 TD64 Irvin et al. 1998, AF004771 R: CCACCTGTTTGCACTTGC Lear et al. 1999 CMA1= chymase – mast cell 1q 14q11.2 F: GAATTGCTCCTCTGCAGGTC 200 1.5 TD60 Caetano et al. 1999 AF130752 CHY R: CCTGTAGGTCCCACCTCTGA COR006 microsatellite 1q25 F: GTTCTGCACATCCTGCTCTT 187-199 3.0 58 Hopman et al. 1999 AF083449 R: AGTGCCCTGAAACTGTATGG COR046 microsatellite 1q17.1 F: TGTTTGCAAAGATATTGGGG 245-259 1.5 55 Ruth et al. 1999 AF108363 R: ACCTGGTCAGGCCTATTACC COR053 microsatellite 1 F: AATTGACTGTGGAAGCCTTG 173-197 3.0 55 Ruth et al. 1999 AF108370 R: GGCTGAGGAGTAAGCTGAAAG COR059 microsatellite 1p12.3- F: ATGAATGGCAAATTGAAGGA 265-277 3.0 58 Ruth et al. 1999 AF108376 p12.2 R: TTCTGTTTAGGGGCTCTTAGG 1 COR063 microsatellite 1 F: CAGAGCAATCCTTCTGTCACG 130 1.5 58 Tallmadge et al. 1999 AF142600 R: GTTGTTTATCATTTGAAAGCCG COR079 microsatellite 1 F: TGCTGCCAGATCTTCTGAAT 202-212 1.5 58 Tallmadge et al. 1999 AF142616 R: TGGAGAGCGTGAAATTAACC COR100 microsatellite 1 F: CCCAGAGGTTTCAGAGGG 188-220 3.0 58 Tallmadge et al. 1999 AF154953 R: ATTCTAGGGCATATTATGACAA CYP1A2 cytochrome P450, 1q 15q22- F: ATCCAGGAGGAGCTGGGTAG 202 2.0 65 Caetano et al. 1999 AF134063 subf. I, polyp. 2 qter R: GAGTGTCGGAAGGTCTCCAG FES feline 1q14-q15 15q26.1 F. CACCCAAGGTCACACATCAG 201 1.5 58 Caetano et al. 1999; Lear et al. AF130763 sarcomavirus homologue R: AATGAGACGCACAATGTTGG 2000 HMS07 microsatellite 1q25 F: CAGGAAACTCATGTTGATACCATC 172-182 3.0 58 Guérin et al. 1994 X74636 R: TGTTGTTGAAACATACCTTGACTGT HTG12 microsatellite 1 F: CACTAGAGTCAGGGGGGGTGGGCT 111 1.5 65 Marklund et al. 1994 AF169296 R: TTGGAGTACTCTTTCTCCCTTCCC IGF1R insulin-like growth 1 15q25-q26 F: TCCAGACAGGAGTACAGGAAGT 105 2.0 65 Caetano et al. 1999 AF097585 factor 1 receptor R: CGACCCATTTCCAGAGAGAG INSR Insulin receptor 1 (S) 19p13.3- F: CATGATCACTGATTACTTGCTGC 85 2.5 58 Lyons et al. 1997 p13.2 R: CCGGATGACCGTGAGGTT LEX020 microsatellite 1q13 F: GGAATAGGTGGGGGTCTGTT 192-215 2.0 58 Coogle et al. 1996 AF075622 R: AGGGTACTAGCCAAGTGACTGC LEX030 microsatellite 1 F: GGAGGGTGCAAGGTGCTA 173-179 1.5 55 Coogle et al. 1996 AF075632 R: GGCAGGTCAGAAGGGACA LEX039 microsatellite 1 F: CCTCTGTCCCCACTACTCTC 181-187 3.0 58 Coogle et al. 1997 AF075641 R: TTGATCTCCACTCCCAATG LEX058 microsatellite 1q17.1 F: GCAATCCGCTAGATAGAGTG 224-236 2.0 55 Coogle & Bailey 1997 AF075665, R: ACCTTTACTTTACGGGTCACA AF075664 LEX077 microsatellite 1 F: GGTCTCTATGGATCTCTTTGTG 181-199 5.0 58 Bailey et al 2000 AF213363 R: GACTGATAAAACATGGAAGGTT MYH6 myosin, heavy 1q25-q26 14q12 F: AGTTGCAGAACCCGAGTGAC 200 2.0 58 Caetano et al. 1999; Milenkovic AF130771, 2 polypeptide 6 R: ACAAGGGGAAACCATGTGAG et al. 2002 MYH7 Myosin, heavy polypeptide 7, cardiac 1q25-q26 14q12 F: GGCTAAGTCCTCACGCACTC 176 2.5 58 Milenkovic et al. 2002; Lyons et muscle, beta (S) R: AGACCTGTCCCAGCTTCAGA al. 1997 MYO5A myosin VA 1q23 15q21 F: TTGTCAAAGTGTTGAATTTG ~500 3.0 58 Mariat et al. 2001 (heavy polypeptide 12, myoxin) R: GGTGACAGGAAAGATGTG NP nucleoside phosphorylase 1q26-q27 14q13.1 F: CATTCCCAGTGAGGGTTTTC 110 1.5 58 Godard et al. 1998 R: CGGATCAGCATGATATCACC NV031 microsatellite 1 F: AACTCAAAAGCACAAGCCCACAC 128-130 2.0 58 Roed et al. 1998 AF056394 R:CAACACAGTGATGACCCAGGTAGG PACE paired basic amino 1q16 15q25- F: ATGGAGCTAGGCCCTGGTT ~150 2.0 58 Godard et al. 2000 acid cleaving enzyme q26 R: CCATGCTTGCGTGCCACA PK3 pyruvate kinase, muscle 1q21.1- 15q22 F: GCAACCTGGGTTCTGTGTTT 207 2.0 58 Shubitowski et al. 2001 AY008802 q21.2 R: CCTGCCAAATTGCTCAAAAT PKM2 pyruvate kinase, muscle 1q21 15q22 F: GGGTGCTAAGCGAGATGCTA 208 2.0 58 Lear et al. 2000; Mariat et al. AF218583 R: CCCAGACAGATGTCCAAACA 2001 PLAU plasminogen 1 10q24 F: TCTCTTCCTCTTTCCCAGCA 209 2.0 58 Shubitowski et al. 2001 AY008803 activator, urokinase R: ACCGACCCAGGTAGACAATG RET ret proto-oncogene 1 10q11.2 F: TTTGGTCTTGCAATGGACAG 201 2.0 58 Shubitowski et al. 2001 AY008809 R: CTAGACCCAAAGCCAGCAAG SGCV25 microsatellite 1q14 F: GCCCATATTAGTAGGACTGTG 210 2.0 58 Godard et al. 1997 U90603 R: GGCCATATTCAGCAGAGCT SLC30A4= Solute carrier family 30 (zinc 1 (S) 15q21.1 I. Tammen pers. comm. 200 3.0 60 ZnT4 transporter) TJP1 tight junction protein 1 1q16- 15q13 F: CATTTCTATGACACACACAAGGTC 285 3.0 58 Fetal cDNA library, EST#651 G62194 q17.1 R: TGATTGATTAACAGAATGTGGTG TKY002= microsatellite 1q17.2-q17.3 F: TTCCCTCCCATGGTTATTTTTC 113-119 4.0 TD60 Sakagami et al. 1995 ECA2 R: TCTCTACTTTCATATACATTTGG TKY007 microsatellite 1p12.1 F: CAAGGGACGTGTTGTAGTTG 152 2.0 58 Hirota et al. 2001 AB048318 R: TTATACCAACTGGAGGATGG 2 TKY013 microsatellite 1q12 F: ACTGTTCCCTTTTTAGCACC 137 2.0 58 Hirota et al. 2001 AB048324 R: TTAGGAAACAGGACTACTGG TKY015 microsatellite 1q12 F: GGATTTTAGAAGTACAGAGGG 149 2.0 58 Hirota et al. 2001 AB048326 R: CATCCTACTGAGAACAATGCG TKY106 microsatellite 1 F: CTAATCTTCCTCAGCACACACA 109 2.0 58 Mashima et. al 2001 R: GGTTGCCATGTATCTTTAGTCTCC UCD440 microsatellite 1 F: TGTTCGGACAGTGTGGAT 100 1.5 58 Eggleston-Stott et al. 1999 U67410 R: GCAGGGTATGTGTGTGCT UCD487 microsatellite 1p12.1- F: CCCTGGGCGGTCACATGT 135-149 1.5 55 Eggleston-Stott et al. 1997 U67417 p11 R: AACCTGCCTCCCTTGGGTCTC UCD493 microsatellite 1 F: ATTGGATATTTAACACCAAATGC 199 1.5 58 U67418 R: CCCAGCTCAGTGACTCCATT UM002 microsatellite 1 F: AGTGGCAGCATAAAGATG 240-260 5.0 58 Meyer et al. 1997 AF195124 R: TTTTGGTCCTTGTAGGAG UM004 microsatellite 1q22 F: AGGTCAGGTTCACTTTTTC 92-117 3.0 55 Meyer et al. 1997 AF195126 R: AGGTCACTGTGCCTAGTTG UM041 microsatellite 1 F: TGCCCTTCCATGAACAGAC 105-115 2.0 58 Swinburne et al. 2000 R: TCCCTCTCTCTCTCTCCTTCTC UM043 microsatellite 1 F: CCTCAATCTTTTCTTCTCC 145-150 1.5 58 George et al. 1998 AF195586 R: TCAAGAGAGACGCTACAC VHL134 microsatellite 1p12.1 F: CTGGGAACAGAATCAAGACTTG 157-163 3.0 58 van Haeringen et al. 1998 Y08448 R: TAATATGCATGTATCTGATAGCTC VIASH34 microsatellite 1 F: TGAGTGTTTGCGTGTGTGTG 113 5.0 55 Ewen & Matthews 1994 L23549 R: TCCCGTCTCCTCTCTTGTTC ECA2Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size(bp)A-14 microsatellite 2q14-q21 F: CAGCTGGGTGACACAGAGAG 212-238 2.0 58 Marti et al. 1998 Y10238, R: GTCATCACTACTCCCTACAC Y10239 AHT012 microsatellite 2 F:ACCCAAAGTCATGGGAATCA 104-116 3.0 58 Swinburne et al. 1997 R: TTGTTGCCGACAACATGC AHT035 microsatellite 2p15.1- F: TGACTTAGAGCTTTTGCTCCC 125-141 2.0 58 Swinburne et al. 2000 AJ271520 p16 R: CCAGAAGTCCAGGCATTTGT ALPL alkaline phosphatase, liver/ 2p14 1p36.1- F: GAAAAGAAAGTGTCAGACTGCC 190 1.5 58 Mariat et al. 2001 HMS51 bone/kidney and microsatellite p34 R: GCTCCATGTTTCCTGACAGG ASB13 microsatellite 2q14.3- F: CTCTGAAAGAGCAGGATTGG 125 2.0 58 Breen et al. 1997 X95328 q21.2 R: GTCTTCTAAGTGGTAAGAGCC ASB17 microsatellite 2p14-p15 F: GAGGGCGGTACCTTTGTACC 130 2.0 55 Breen et al. 1997 X93531 R: ACCAGTCAGGATCTCCACCG ASB18 microsatellite 2 F: TGCAGACAAAGCTGGACACTC 205 2.0 58 Breen et al. 1997 X95333 R: CTGCTGAGAAAGCTTCTGC CLU clusterin 2 8p21-p12 F: GAGTACCGCCAGAAGAACC 503 3.0 58 Lindgren et al. 2001 L46797 R: CAGATTACAAGGCCGTTTTAT CNK cytokine-inducible kinase 2 (S) 1p34.1 F: ATGCCCTTCTGGTGAAGTA 197 2.5 55 Lyons et al. 1997 R: AAACTGGAGCCCTGACTCT COR026 microsatellite 2 F: GGCGTCCAACGTAAAGTAGA 224-228 2.0 55 Murphie et al. 1999 AF101395 R: CCTCTTCGGAAACTCTGACA COR035 microsatellite 2 F: CAAACTCACCGTATTTCAGGC 205 3.0 55 Murphie et al. 1999 AF101404 R: TTGCTTTCTCACCTCCTTTG COR037 microsatellite 2 F: GAGCAATTTCTGGGTCTGAG 225-245 2.0 58 Murphie et al. 1999 AF101406 R: CACCCCTCTCTTTGTTTGTC COR041 microsatellite 2 F: CAACTTGGGTTCTCGCTTAG 223-241 2.0 58 Ruth et al. 1999 AF108358 R: TCCGGAAAGTGCAAAGTTAG COR043 microsatellite 2 F: ACGCTCATTTCATAGGCTCTGAC 127-129 2.0 55 Ruth et al. 1999 AF108360 3 R: GCAGGAGTGGTGTTTGTTTCAC COR049 microsatellite 2 F: TGACATTCACAATGACCAGC 190-192 2.0 58 Ruth et al. 1999 AF108366 R: CGGCCTGCACTATAGACTTC COR051 microsatellite 2 F: GTATGGGAGAGAGCAGAATCAG 290-292 2.0 58 Ruth et al. 1999 AF108368 R: GGTGCTAGATGTGCTCATTACT COR065 microsatellite 2 F: CAAAAGCACACACAAAGTGC 264-282 2.0 58 Tallmadge et al. 1999 AF142602 R: TCCGGAAAGTGCAAAGTTAG COR078 microsatellite 2 F: TGCAGGGTGAAGATATGAGC 230 2.0 50 Tallmadge et al. 1999 AF142615 R: ACCTATGTGCACGCACTCTC COR090 microsatellite 2 F: GGTTTGTCTCTTTGAGGTGTG 81-103 2.0 58 Tallmadge et al. 1999 AF154943 R: TGCTCATATCTTCACCCTGC COR094 microsatellite 2 F: GAAGGGTAGAACAGGGCAGAC 283-291 2.0 58 Tallmadge et al. 1999 AF154947 R: CAGCTCTATAATTCTGGGAAGC ECE1 endothelin converting enzyme 1 2 1p36.1 F: CAAGGATGGGAACCTCCG 95 2.0 58 R: TGTAGTTGCCGTACTGCC EIF4G3 eukaryotic translation initiation 2 1pter- F: TTCCTGTTCCTCCGAAGCAC 102 2.0 50 Testis cDNA library factor 4 gamma p36.13 R: TGTTCATCATTCGCTTTGTCC FABP3= fatty acid binding protein 3, 2 1p33-p32 F: CATGAAGTCAATCGGTGTGG 191 2.0 58 Tank & Pomp 1995; AF143950, HFABP-L heart fatty acid binding protein-like R: GGGACTTGACCTTCCTGTCA Caetano et al. 1999 AF097591 FGG fibrinogen, gamma polypeptide 2q14.3- 4q28 F: ACTTCTCGGGGTTATTGCAG 191 2.0 58 Caetano et al. 1999 AF134218 q21.1 R: AGCCAAAGATTGAGCAATGG GPR3 G protein-coupled receptor 3 and 2p14 1p36.1- F:AATGAACGGAGAAGCAGAAAGGC 100 2.0 58 Mariat et al. 2001 HMS54 microsatellite p35 R: ACTGCGGTGCAGGTTGGAGG HDAC1 histone deacetylase 1 2 (S – 1p34 F: AAGTTGGCTTGAGCAGACCTCT 301 3.0 58 Fetal cDNA library ECA18) R: AGGATTTTGTCTTATGGCTGCTTAA EST#394 HP1-BP74 gene with protein product, function 2 1pter- F: GCAGCTGGGACTTTAGGT 641 3.0 58 Testis cDNA library known or inferred p36.13 R: CCAAAGAAAGAGCCAGATG # AM001_B05 HTG19 microsatellite 2 F: GTATGTGCTGTACCTTCTGC 130-144 3.0 58 Lindgren 2000 R: ATGAGAAAGACGATAGATGATAT NPPA = natriuretic peptide precursor A 2p13-p14 1p36.2 F: GATAACAGCCAGGGAGGACA 210 2.0 58 Caetano et al. 1999; AF134229, ANP R: CTGGGGAAGCCACAATTAAG Lindgren et al. 2001 X58563 RBBP4 retinoblastoma-binding protein 4 2 1 F: 164 3.0 58 Fetal cDNA library CAGTTGTACCACAGGTAGACTGTCCA EST#1105. R: ACAGGTCACCCAAAATAGAGATGGT SMARCA5 SWI/SNF related, matrix associated, 2q21 4q31.1-q31.2 F: GAAGCTGAAACTATGAATACATA 164 3.0 58 Fetal cDNA library, G62205 actin dependent regulator of R: CTACATACTATGTTTCTAGCTCG EST#833; Lear et al. 2001 chromatin, subfamily a, member 5 TKY3= microsatellite 2p15.1- F: GGTTCACACAGGAGTCAGGGA 162-168 2.0 58 Tozaki et al. 1995 ECA-3 p15.3 R: CCTTCTGGTTTGCCTCGTCTC TKY024 microsatellite 2p14-16 F: GATCCAACAGCAGCAACAGCAG 151 2.0 58 Hirota et al. 2001 AB048334 R: AGTGGCATGGCATGAGCTTC UCD380 microsatellite 2 F: GTGGGATGGGGTAGGAAC 129-133 2.0 58 Eggleston-Stott et al. 1999 U67403 R: ACTGGGAAGTGCTGCAAA UM007 microsatellite 2 F: GGGAATAGAGAAAGGTGAAG 115-150 2.0 58 Meyer et al. 1997 R: TTAGAGTTCCTGCTCCTCC UMNe076 microsatellite 2 F: CCCTCAGGTTGAGGACTCAG 98-102 2.0 58 Roberts et al. 2000 R: AGGTGACAACCTGGATTTGC ECA3Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession product (mM) number name/ Horse Human symbol size (bp) ADD1 adducin 1 (alpha) 3 (S) 4p16.3 F: ACTGCTTTGAGCTTCCTGGCG 250 1.5 58 Fetal cDNA library ; G62182 R: GAAAGGACGTAGGACCTGTCCTCC EST#535; 4 Lear et al. 2001 ADH2 alcohol dehydrogenase 2 3 4q21-q23 F: GAAGTGGTGGATGGGCTTC 192 2.0 58 Caetano et al. 1999 AF133272 R: AAGGCAACCTCTGCTTGAAA ADH3 alcohol dehydrogenase 3 3 F: GTGCTATGCCTTGTCCGTTT 204 2.0 58 Caetano et al. 1999 AF134056 R: CACCTGCCCAGATTCTGATT AHT022 microsatellite 3p13 F: AAGCACAATGTGGOSGTTAG 189-197 2.0 58 Swinburne et al. 1997 R: TCCACGTTCACACATACCTCA AHT036 microsatellite 3p16 F: TGCTGCCTCCAGTGTCCT 133-144 2.0 58 Swinburne et al. 2000 AJ271521 R: TAGATTTCACAGGCGGGTG AHT090 microsatellite 3 F: ACGTTTTCCAGTTCCTGATACC 109-111 2.0 58 Swinburne et al. 2003 AJ507707 R: GTTCTTTGCTGTCTGGGGTC AHT097 microsatellite 3 F: AGTTCGGTAACTTGCCCATG 151-165 2.0 58 Swinburne et al. 2003 AJ507714 R: GTTCATGGGCAGAATGGC ALB albumin 3q14.3 4q11-q13 F: CGGATTCCTTGGCGGAAAGAC 110 3.0 58 Godard et al. 1998 R: GGAAGGTGAATGTTTCAGCCT ASB23 microsatellite 3q22.1- F: GAGGTTTGTAATTGGAATG 129-153 2.0 55 Irvin et al. 1998; Lear et al. X93537 q22.3 R: GAGAAGTCATTTTTAACACCT 1999 CBFB core-binding factor, beta subunit 3 16q22.1 F: AATCTTTCATCACCCAGC 168 2.0 58 Testis cDNA library R: GAAAAGGGATACTGGAGC #AM004_E09 CCNI cyclin I 3 (S) 4 F:GGTGCTCACCAAAGAAACATGTAAC 311 3.0 58 Fetal CDNA library R: CATCAGTACATGGTTCTGACCTGC EST#698 COR005 microsatellite 3 F: CAATTCCTGGCATGCTGTAAG 198-200 2.0 58 Hopman et al. 1999 AF083448 R: GATGCTCACTTCCATGAACC COR028 microsatellite 3 F: TAAAGAGGAAGGCAATGGAC 227-241 2.0 58 Murphie et al. 1999 AF101397 R: ACCTTTTGTGCTAGGCACTG COR033 microsatellite 3 F: CCTCCCCTACTTCCTCTCTG 219-243 2.0 58 Murphie et al. 1999 AF101402 R: CATTTTCTTTCCAGGTTCCC GLG1 Golgi Apparatus Protein 1 3p12-p13 16q22- F: TCATGTTAGAGCAGCAGCAGGTA 203 2.0 TD60 Fetal CDNA library , EST#564; G62189 q23 R: GGTTCTGGAAGTATTGGTAATTCCA Lear et al. 2001 GOT2 glutamic-oxaloacetic transaminase 2, 3p14-p15 16q21 F: TCTCCCAGCTGGATCTCAAT 203 2.0 58 Lear et al. 1998 AF052648 mitochondrial R: GGCGTGCAGGAGAATAATGT HMS61 microsatellite 3p12 16q24.3 F: TGCATCTGACCTAATGTGGC 200 3.0 55 Mariat et al. 2001 R: CGTCAAACCATGCTGTCACG HNRPDL heterogeneous nuclear 3 4q13-q21 F: GTCAACTTGTCACCCAATC 170 3.0 58 Testis cDNA library ribonucleoprotein D-like R: CTAGGCCAAGTACCAGTGT HTG02 microsatellite 3 F: GATTGGCAACAGATGTTAACTCGG 99-107 3.0 58 Ellegren et al. 1992 AF169163 R: CCCCATGAGAACTAACAATGTTAG KARS Lysyl-tRNA Synthetase 3p12-p13 16q23- F: CTGTTTCCTGCCATGAAACCC 223 3.0 58 Fetal cDNA library, EST#553; G62187 (S) q24 R: TTCTCTCCTCTGGTTGCTGACC Lear et al. 2001 KCC1= solute carrier family 12 3p14 16q22.1 F: GCCGCGGGTACTTCACGTGGAG ~400 3.0 58 Hanzawa et al. in press AF425261 SLC12A4 (potassium/chloride transporters), R: GGGGCCTCCTCACACCAAGAACTG member 4 KIT v-kit Hardy-Zuckerman 4 feline 3q21-q22.1 4q11-q12 F: TTGGCATGCAGCTATTGAGT 202 3.0 58 Lear et al. 1998; AF053636 sarcoma viral oncogene homolog R: CCTCGCATAACCTTCATCGT Raudsepp et al. 1999 LEX007 microsatellite 3 F: GGTAGGGCTCTGGGATGA 188-198 2.0 58 Coogle et al. 1996 AF075610 R: AACACTGGGGAAAAGTCAG LEX057 microsatellite 3 F: TGGTCCCCTAATCAAATCAGA 157- 2.0 58 Coogle & Bailey 1997 AF075659 R: ACGGCATCCCACATAAAATAG 167 LOC51170 retinal short-chain dehydro- 3 4 F: GCTCTGGCAGTCCTCGTTTCT 406 3.5 TD60 Fetal cDNA library genase/reductase retSDR2 R: EST#933 GCATTGAAATGTGAGGTATGTCTCAA MC1R melanocortin 1 receptor 3p12 16q24.3 F: CAGCAGCTGGACAACATCAT 205 2.0 60 Wagner & Reissmann.2000, AF252541 R: AAGCGATGAAGAGGGTGCTA Raudsepp et al. 1999; Godard et al. 2000 PHKB phosphorylase kinase, beta 3 16q12-q13 F: TTAGCCCAACCTCTACA 399 3.0 58 Testis cDNA library R: GAGTATGCCAGCTACAAT #AM002_B04 SG18 microsatellite 3p13-p14 F: TGGGGAAGAGGGATTCAT 157 1.5 TD60 Godard et al. 1997 U90596 R: AAATGCCAAGCCTATCTATGC 5 SPARCL1 SPARC-like 1 3 (S) 4q22.1 F: GAAAGAACTCAAACTTCCCAGC 321 1.5 58 Fetal cDNA library, G62171 R: TGAAGTACACGTGATATTACGGAC EST#190 UCD437 microsatellite 3 F: CTGTTCTGGGCAGGCTTCTCTA 167-191 2.0 58 Eggleston-Stott et al. 1997 U67408 R: TTGCTGGCTTGGCTGGTC UCHL1 Ubiquitin carboxyl-terminal hydrolase 3q22 4p14 F: GCTTCCCTACTTGTAGAACACAGC 187 2.0 58 Fetal cDNA library, EST#259; G62176 L1 R: CAATTAAACCACATCCAAGGCC Lear et al. 2001 ECA4Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT013 microsatellite 4 F: CTTCCTCAGGTGCATAGGTTG 142-146 2.0 58 Swinburne et al. 1997 R:TCATTAAAATACAACCTGCCCC AHT042 microsatellite 4 F: CATTTCGCATTTCAGTTCAGG 87-99 3.0 58 Swinburne et al. 2000 AJ271527 R: AAACCCACTCACCTATCACCC AHT043 microsatellite 4 F: ACACAAGTGACAGGAGCGTG 168-186 3.0 58 Swinburne et al. 2000 AJ271528 R: TGGAAGCATGCAAGAGGTC AHT061 microsatellite 4 F: TCTGCATCCTCATGTTCAATG 226-234 2.0 58 Swinburne et al. 2003 AJ507678 R: TTGACTTATTTCACTCAGCCCA AHT084 microsatellite 4 F: TGGCAATCTGCAGGGAAC 87-171 2.0 58 Swinburne et al. 2003 AJ507701 R: GATCTTGTGATTGTGTGTGTG ASB03 microsatellite 4p12-p13 F: AATTCATCTCAGTGCTCTACCAGC 197 2.0 58 Breen et al. 1997 X95318 R: TTCATTTTCTACATGCACTACAGC ASB22 microsatellite 4q21 F: GAGGAATGTGAAATACAGGAGG 159 3.0 58 Breen et al. 1997 X93536 R: TTTGTGGTCTTCCGTGCACC ASB29 microsatellite 4 F: CTGGCCCATAAAAAAACACTG 123-135 2.0 58 Breen et al. unpub. X93543 R: TGTATGGTTGTCAGCTCAAACC Swinburne et al. 2000 CFTR cystic fibrosis transmembrane 4q22 7q31.2 F: CCATGGTTGGAAAGCTGATT 163 2.0 58 Shubitowski et al. 2001; AY008775 conductance regulator R: GGGTTCTTCGAATGATTTGGT Mariat et al. 2001 CLCN1/ chloride channel 1, 4q26 7q35 F: GGTGGCCACGATGGACATCC 120 2.0 58 Mariat et al. 2001 HMS62 skeletal muscle gene and R: ACTAGCCCAGGATTTCTGGGACTC microsatellite COL1A2 collagen, type I, alpha 2 4 (S) 7q22.1 F: GAAGAATGTTGATGGTGCTAGAAG 205 3.0 58 Fetal cDNA library G62185 R: ACCATGGGAAAGGATGAAAAC EST#544 COR047 microsatellite 4 F: GAGACAAGCAGAAGCTCAGG 249-253 2.0 55 Ruth et al. 1999 AF108364 R: CGGACTGTCTGAGGAAACTG COR089 microsatellite 4 F: CCTGCCATAAATTTGTTTCC 272-290 2.0 58 Tallmadge et al. 1999 AF154942 R: TCCCTACCTCATCTCCACAC EN2 engrailed homolog 2 4q27 7q36 F: GAACCCCAACAAAGAGGACA 147 2.0 58 Caetano et al. 1999 AF134060 R: TGAGACTCGTTGAGGCTGAG GCK glucokinase 4p14-p13 7p15.3- F: GTACCCCTGGCCCTTCTTAG 201 2.0 58 Shubitowski et al. 2001 AY008787 p15.1 R: CTAGATCAGGCTGGGTGTCC HMB6 microsatellite 4 F: GAAGATGTCCGCTTTGATAT 132 2.0 58 Binns et al. 1995 Y07734 R: CACTGGCACATCCAGATTTG HMS06 microsatellite 4 F: GAAGCTGCCAGTATTCAACCATTG 180 3.0 50 Guérin et al. 1994 X74637 R: CTCCATCTTGTGAAGTGTAACTCA HMS09 microsatellite 4 F: GCAACAGATATTAGCTCAGGGCC 107 2.0 58 Godard et al. 1997 U89805 R: TGCTGTTCTTTTGCTGTGAAGGG HMS19 microsatellite 4q21 F: CTAACCAGCACAGAATGAATGGC 86 4.0 58 Godard et al. 1997, 1998 U89808 R:TAAAAGAACAGTGGAGAGTAAAGT G HTG07 microsatellite 4 F: CCTGAAGCAGAACATCCCTCCTTG 124 3.0 58 Marklund et al. 1994 AF169291 R: ATAAAGTGTCTGGGCAGAGCTGCT HTG09 microsatellite 4q21.3 F: TGTGGGAAGAGTGTCAATAGCTGT 130 2.0 58 Marklund et al. 1994; AF169293 R: AGGCATCTGGTTTGCTGCAATTTC Godard et al. 1998 HTG22 microsatellite 4 F: TACTACATTTCATCCTCCACAT 150 2.0 58 Lindgren 2000 6 R: GGAGAACTTCCCAGAGAGCA LEP leptin (murine obesity homolog) 4 7q31.3 F: TGGGAAGGACAGGAAGACAG 199 2.0 58 Caetano et al. 1999 AF097583 R: AGAGCAAGAGCTCAGCAAGG LEX033 microsatellite 4 F: TTTAATCAAAGGATTCAGTTG 182-197 3.0 55 Coogle et al. 1996 AF075635 R: TTTCTCTTCAGGTGTCCTC LEX050 microsatellite 4 F: ATAGTCTGGGGTTAGGTAAGG 112-126 2.0 58 Coogle et al. 1997 AF075652 R: TCTAGCCCAATGTAAATGC LEX061 microsatellite 4 F: TCAGTGTTCCCATCTGTA 148-166 3.0 55 Coogle & Bailey 1997 AF075661 R: TGAAATCACACCTTTACTTTA MEST mesoderm specific transcript 4 (S) 7q32 F: ACTTCAGTGCTTAGAAGCGTGTCC 169 3.0 58 Fetal cDNA library (mouse) homolog R: EST#324 GTACAGGAATTGCTAAGCTACATGAG G NV029 microsatellite 4 F: GAGATTTTGCCCCAAAGGTTA 91-113 2.0 58 Roed et al. 1998 AF056393 R: CTCTTCTTTCTTCCCCAGGTCT PTPN12 protein tyrosine phosphatase, 4 7q11.23 F: 271 1.5 58 Fetal cDNA library, non-receptor type 12 TCTGCATGGTCTAAATCTTTGTGTAC EST#179 R: AACACACACAAGCTAAGAGAATTCAA C SEMA3C sema domain, immunoglobulin 4 7q21-q31 F: ACTCCTTCTTGAACGTAAGAGCC 249 2.0 58 Fetal cDNA library G62198 domain (Ig), short basic domain, R: CCTCACACGGAGTGAACATTCA EST#691 secreted, (semaphorin) 3C SG23 microsatellite 4q27 F: GGCTTAAGATATGGGTGAGTAAGG 218 3.0 58 Godard et al. 1997 U90601 R: GCCCACCCTCTTACTTTTCTCAA TCRG T-cell receptor, gamma cluster 4p15-p14 7p15-p14 F: AGCTCCATAAGGCTGGAACA 176 2.0 58 Caetano et al. 1999; AF134235, L38392 R: TGACTTTCCAGTCACGGTCA Lear et al. 2001 UMNe54 microsatellite 4 F: AACTCACTTCTTCCTGCTCG 107-127 2.0 58 Roberts et al. 2000 AF191691 R: CCAAGGCTCTTTGCCAAGAC UMNe63 microsatellite 4 F: GGATTTTCTTCTTTTGAATGGC 128-142 2.0 58 Roberts et al. 2000 AF191696 R: TTTACAATAGCCAAGATGCGG ECA5Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ (mM) number symbol Horse Human AHT24 microsatellite 5p16 F: TCCACTAATATCCCTCCACCC 197-199 2.0 65 Swinburne et al. 2000 AJ272106 R: CTGTACCGCATGTGCAGC ASB10 microsatellite 5 F: GTTGTCTAGGTGCAGAATCTGG 146 1.5 58 Breen et al. 1997 X95325 R: GTTATGTCTCCCCTTTCTCTACC AT3= antithrombin III = serine proteinase 5 1q25.1 F: ATCTGGGGCTGTGTGACCT 151 2.0 58 Caetano et al. 1999 AF134055 SERPINC1 inhibitor, clade C (antithrombin), R: CCTCAGGGATCTTCTGCTCA member 1 CD2 CD2 antigen 5q11 1p13.1 F: TCGTAACTCTGTCTCCTGAC 378 3.0 58 Lindgren et al. 2001 X69884 R: TCCCGAGACACTGGGCAA COR023 microsatellite 5 F: CGTTTAGCACCTCTCATGAAC 269-275 2.0 58 Murphie et al. 1999 AF101392 R: TCTTTGCAAAATAGGGCTTG CTSK cathepsin K (pycnodysostosis) 5 1q21.3 R. Brandon pers. comm.. 151 3.0 55 Fetal cDNA library, EST#714 GBA glucosidase, beta; acid 5 1q22 F: TGTCTGCAATGCCACGTACT 201 2.0 58 Caetano et al. 1999 AF134220 R: GCACAATTCAGTTCCAGCAG GJA5 gap junction protein, alpha 5, 5 1q21.1 F: AGGTCTGGCTCACAGTCCTC 199 2.0 58 Shubitowski et al. 2001 AY008788 40kD (connexin 40) R: GACGGTGTGGAGACGAAGAT HMS05 microsatellite 5 F: TAGTGTATCCGTCAGAGTTCAAAG 102-108 2.0 58 Guérin et al. 1994 X74634 R: GCAAGGAAGTCAGACTCCTGGA HTG15 microsatellite 5 F: TCTTGATGGCAGAGCCAGGATTTG 130-146 3.0 58 Marklund et al. 1994 AF169299 R: AATGTCACCATGCGGCACATGACT 7 IL10 interleukin 10 5 1q32.1 F: AGCATCCTAGGGAACGAA 202 3.0 58 Lindgren et al. 2001 U38200 R: TTCACAGAGAAGCTCAGTAAAT LAMC1 laminin, gamma 1 5 1q25.3 F: GCTCCATGGTAGGCACTATGA 216 2.0 58 Caetano et al. 1999 AF134225 R: TCCGACAGTTCGGTATCATTC LEX004 microsatellite 5 F: AATAGCAAATCTCCCACTTCA 275-293 2.0 50 Coogle et al. 1996 AF075608 R: GTCCTCACAACCTCATCATAA LEX014 microsatellite 5q16-q17 F: AACCACTCTTTCGTCAACCA 197 3.0 58 Coogle et al. 1996; AF075616 R: GCCCCTATCCCTACGAAGAA Lindgren et al. 2001 LEX034 microsatellite 5 F: GCGGAGGTAAGAAGTGGTAG 245-257 3.0 58 Coogle et al. 1997 AF075636 R: GGCCTAAGATGAGGGTGAA NGFB nerve growth factor, 5 1p13.2 F: TCACTGTGGACCCCAAACTT 147 2.0 58 Caetano et al. 1999 AF134228 beta polypeptide R: TCCTGTGAGTCCTGTTGAAGG PKLR pyruvate kinase, 5 1q22 F: AGATACGCACTGGGATCCTG 197 2.0 58 Shubitowski et al. 2001 AY008804 liver and RBC R: CCAGCTCCACTTTTGATTCC PRG4 proteoglycan 4 5 1q31.1 F: TTATCCAAAGTCTGGTACAACTG 216 1.5 60 Fetal cDNA library G62167 R:TGTCTACAAACTGTAATAAATGTGA EST#20 PTGS2 prostaglandin-endoperoxide 5p15 1q31.1 F: GACCGAGTTAAATCAGGATGA 435 3.0 58 Lindgren et al. 2001 AF027335 synthase 2 R: CGCTTCACTGTAATGCCAG SH3GLB1 SH3-domain, GRB2-like, 5 1p22.3 F: GAGTGAATTTGATCGTCAAGC 539 2.0 62 Testis cDNA library endophilin B1 R: CTGGAGGTCTAACATGTACTGG #AM022_C06 TKY041 microsatellite 5p18 F: TGGACAAGTGCTCTGTAATG 160 2.0 58 Hirota et al. 2001 R: TTCCATGAGTCTGGAGTTGG UCD304 microsatellite 5 F: CGCTTTCCTGCTGTCACC 97-115 2.0 58 Eggleston-Stott et al. 1999 U67402 R: GAGGGACTGTGGGGGAGGT VCAM1 vascular cell adhesion molecule 1 5q14 (S) 1p32-p31 F: GACTGGCAGCTGACCTATGTC 262 2.0 58 Fetal cDNA library, EST#302; G62179 R: AGTCTGATGAATCAACATCGTAGC Lear et al. 2001 VDUP1 upregulated by 1,25- 5p12 1 F: CCAGCAAGATGATGTGGTATGG 178 2.0 55 Fetal cDNA library, EST#971; G62161 dihydroxyvitamin D-3 R: AACCCCTTCCAAAAAACCTTGG Lear et al. 2001 VHL66 microsatellite 5 F:TCTTTAAAATTTGATGCACAATGGT 102-108 3.0 58 Van Haeringen et al. 1998 R: GGGGAGAATTTACTTATCTTGAC Y08440 ECA6Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) CHRNG cholinergic receptor, nicotinic, 6p 2q37.1 F: CCCTCACCACCAATGTCTG 178 2.0 58 Caetano et al. 1999 AF130751 gamma polypeptide R: CCCCTCTCTCTGCTACATCG COR010 microsatellite 6 F: TTGAAGGGTGGAGTAGGG 289-299 2.0 58 Hopman et al. 1999 AF083453 R: GACAAGAAGGGATGAAGGAG COR019 microsatellite 6 F: GAAAGGTCAGAACAGGCAGA 220-222 2.0 58 Hopman et al. 1999 AF083462 R: CTAGGAATGTGTGTACATGTGTT COR070 microsatellite 6 F: CATCTGTTCCGTGGCATTA 267-295 3.0 58 Tallmadge et al. 1999 AF142607 R: TTCAGGTGTGGGTTTTGAATC CUL3 cullin 3 6 2q36 F: CATATGTAGCATAAAATGCGC 294 3.0 58 Fetal cDNA library G62174 R: CCTGTTTTCATACAGTATTGAAA EST#250 FN1 fibronectin 1 6p15 (S) 2q35 F: AGGCTGCACATTTCAGTTCC 196 2.0 58 Caetano et al. 1999; AF130764 R: GGAAAATCGGCAATTCGTAG Mariat et al. 2001 GAPD Glyceraldehyde-3-phosphate 6 (S) 12p13 F: TTGGCATGATAGAGGGATTC 142 2.5 58 Lyons et al. 1997 dehydrogenase R: CCCATTTAGCTCAGGGATGA HTG31 microsatellite 6 F: CTCTGTAACCCTTATATCCTTA 162 2.0 58 Lindgren et al. 1999 R: TGTTGATTGCTCCTCCCCT IFNG interferon, gamma 6q22-q23 12q15 F:TGGGGAATATATTTTTAAACTCAT 203 2.0 58 Caetano et al. 1999; Milenkovic AF130766 CA et al. 2002 R: CGGCTACCCACTCCCTAGTT LEX065 microsatellite 6 F: GAAGGCACAATTCAATCTACT 144-156 2.0 58 Coogle & Bailey 1999 R: GCCCAGTCCCATTCTAAC8 MAN1 integral inner nuclear 6 12q14 F: AAGACTACTTTCGCCACC 209 3.0 58 Testis cDNA library membrane protein R: AGTTCCTTATGGGCTACTG #AM004_A06 MAP2 microtubule-associated 6p (S) 2q34-q35 R. Brandon pers. comm. 134 3.0 58 Fetal cDNA library protein 2 EST#425 NV081 microsatellite 6 F: TTCTGGATGAAGTGCAGCC 166-168 2.0 58 Bjornstad et. al 1999 AJ245769 R: GGACAGTGGAGGTGGAGGATA NV082 microsatellite 6 F: TGTGGCAGCATCCCACAAAC 127-141 2.0 58 Bjornstad et al. 2000 AJ245770 R: CCTCCATTTTTGTCGGTTAGCG PAX3 paired box homeotic gene 3 6p 2q36.1 F: GTTATTTTGCCCCGGTTTCT 187 2.0 58 AF179634 R: AAGAGGAGCCCACCTGATTT PFKM phosphofructokinase, muscle 6 12q13.11 F: TCTCCCACCTACCATTACGG 204 2.0 58 Caetano et al. 1999 AF134231 R: GGCCCATTCTTTCCTTTTTC RKJ06 microsatellite from micro- 6q22 F: GTGGCTAGGAAAAGTTAGCG 225 3.0 58 Raudsepp & Chowdhary, unpub. dissected ECA6 library R: CAAGTCATACGCAATGTTTAG SILV= silver (mouse homolog)-like 6q23 12q13.2 F: AGTACCGGGACCCTGATCTC 199 2.0 58 Rieder et al. AF076780 PMEL17 R: CTGCAGTAGGCACTTGTCCA TKY111= microsatellite 6 F: TATGGCGATTTCTGGTCTGTGTC 125-131 2.0 58 Mashima et al. 2001 AB053346 RC11 R: GATGACAACACTGGGAAGAAAGAG TKY284 microsatellite 6 F: CTGGACTAGAGTCAGATTGC 159-175 2.0 58 Tozaki et al. 2000 AB033935 R: AACAGGATTCCCCCAATGCC TPI1 Triosephosphate isomerase 1 6 (S) 12p13 F: AGAAGGTCGTTTTCGAGCAA 134 2.5 55 Venta et al. 1996 R: CCAGCAAGGGGATTAAGTCA UCD465 microsatellite 6 F: AACCAGTCCCTACATAGAAC 200-206 2.0 58 Eggleston-Stott et al. 1999 U67414 R: CTCACAACCAAGCATACA UM015 microsatellite 6 F: AGTCTGGCTGAGGATACTG 153-163 3.0 58 Meyer et al. 1997 AF195133 R: GGTGAGAAAGGAGATAAATG VWF microsatellite near F8VWF 6q12 12p13.3 F: GCCATGTCTTGATGTGGTGG 180 2.0 58 Mariat et al. 2001 HMS55/ von Willebrand factor gene R: TAATGGAATATCACCACCGG WIF-1 Wnt inhibitory factor-1 6 12q14.1-q15 F: AAGTACGTCTGTAGCGTGATGGT 344 3.0 58 Fetal cDNA library, G62206 R: TCTCTGGGATCAGGAGAAAGTC EST#911 ECA7Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT019 microsatellite 7q F: CATTTCTCTGGTGTATCTCCCA 137-145 2.0 58 Swinburne et al. 1997 R:GGAATAGTCATAGTCCACGACC APOA4 apolipoprotein A-IV 7p15 (S) 11q23.3 F: TCTTCAGCACTCTCAAGGAGGAGA 189 1.5 58 Fetal cDNA library, EST#211; G62172 R: CACGTGTCCTCAAGCTCATACAAG Lear et al. 2001 APOC3 apolipoprotein C-III 7p14 11q23.3 F: CAGCTATCTGCCTGGAGGAC 217 2.0 58 Shubitowski et al. 2001 AY008771 R: ATGCTGGTCAGCGTATCCTT COR004 microsatellite 7 F: GAGTGTGACGGAGGACGA 292-312 3.0 58 Hopman et al. 1999 AF083447 R: AGGGAGCAAACGCAAGAC COR095 microsatellite 7 F: TACCTCTGGTGGTGATGCTT 206-216 2.0 58 Tallmadge et al. 1999 AF154948 R: CCCACACTTACTCCCATCAC DRD2 dopamine receptor D2 7 11q23.2 F: GATGTGCACAGCAAGCATTT 207 2.0 58 Caetano et al. 1999 AF134061 R: CCATGCATGCACATACACAC HBB hemoglobin, beta 7q14-q15 11p15.4 F: CCTGGGCAGGTTAGTATCCA 146 3.0 58 Caetano et al. 1999; AF134224 R: ACCAGCAGCTTAAGGGGTTT Milenkovic et al. 2002 HTG33 microsatellite 7 G. Lindgren pers. comm. ~200 2.0LEX015 microsatellite 7 F: GCATTCCCATCATCACAT 132-145 2.0 50 Coogle et al. 1996 AF075617 R: CCTGCCTTGCCTCTTTCT LEX038 microsatellite 7 F:CTGCATTCCCATCATCACAT 133-145 3.0 58 Coogle et al. 1997 AF075640 R: TGCCTTGCCTCTTTCTGTTTA9 LEX045 microsatellite 7 F: AATCGAAGGGCCGCAGAGTT 233-258 2.0 58 Coogle et al. 1997 AF075647 R: CCAAATGCCCAGCCTCCTG LYVE-1= lymphatic vessel endothelial 7q16-q18 11p15 R. Brandon pers. comm. 300 3.0 58 Fetal cDNA library, XLKD1 hyaluronan receptor 1 EST#142; PAX6 paired box homeotic gene 6 7q18 11p13 F: GCCTAATTCAGGCCACAGAA 194 2.0 58 Godard et al. 2000 AY008800 R: CATGAAATGTGGCAACCAAG PTH parathyroid hormone 7 11p15.2 F: ACCTGGGCAAACATCTGAAC 199 2.0 58 Caetano et al. 1999 AF134233 R: TCCACATCAGCTTTGTCTGC SG28 microsatellite 7 F: CTGTGGCAGCTGTCATCTTGG 157 1.5 58 Godard et al. 1997 U90604 R: CCCAATTCCAGCCCAGCTTGC THY1 Thy-1 cell surface antigen 7 11q23.3 F: GGGAGAGAGACCAGCACTCA 202 2.0 58 Caetano et al. 1999 AF134236 R: GCCCAGTTTTCTTGTGAGGA TKY005 microsatellite 7p12 F:GTCAGAGTTCTCCAGAAAAGTC 107 2.0 60 Hirota et al. 2001 AB048316 R: ACAGATAGATATTCTCTCTAG TKY012 microsatellite 7p14.3 F: GAAAAAGTGACACAACAGCTT 88 2.0 58 Hirota et al. 2001 AB048323 R: ACTAGAGGAATGAGATGTGT TKY034 microsatellite 7p14 F: GCCACTGTAATGGTCTGAAG 160 2.0 55 Hirota et al. 2001 AB048340 R: GGAAGGTAGAGCATTCTCAG TKY035 microsatellite 7p14 F: CCTTCCCACTCTCTCCAAAG 122 2.0 58 Hirota et al. 2001 AB048341 R: TTAGAGCTGTGCGATGTCAA TKY272 microsatellite 7 F: CTTGAAGATTCAGGTCATGG 100-116 2.0 58 Tozaki et al. 2000 AB033923 R: ATATCATAGCAAATGGCAGG TKY282 microsatellite 7 F: TTACATCTCTGCACTCTCCC 147-155 2.0 58 Tozaki et al. 2000 AB033933 R: GGTCTCATGCAAAACGCAGG TKY283 microsatellite 7 F: GGAAGTCATCTCTTTCCAGC 203-207 2.0 58 Tozaki et al. 2000 AB033934 R: AATACATGATTCCTGCCTGC TUB tubby (mouse) homolog 7 11p15.4 F: GGGCTGGAATGTAACCAGAA 209 2.0 58 Caetano et al. 1999 AF097580 R: TCTGGTCCATGCACAATCAT UMNe74 microsatellite 7 F: CGATGGATGTGCTGTAAACG 139-143 1.5 58 Roberts et al. 2000 AF191705 R: TGCTGCCTTCTCCCTCAC ECA8Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl Ta References Accession name/ product 2 number symbol Horse Human size (bp) (mM) AHT005= microsatellite 8 F: ACGGACACATCCCTGCCTGC 150 1.5 58 Binns et al. 1995 HMB5 R: GCAGGCTAAGGGGGCTCAGC AHT025 microsatellite 8p16-p17 F: TCCCACATGCCACAACTAGA 172-176 2.0 58 Swinburne et al. 2000 AJ272107 R: TTCCCCCTTGCTTTTAAAAC ASB14 microsatellite 8 F: CTCCATGAATTCTCGCAGGTTGG 120 2.0 58 Breen et al. 1997 X95329 R: CCATGGGCCATATGCACACTGC CDH2 cadherin 2 8q14-q15 18q12.1 F: TCAGTCCACTGCCACTGTGT 199 2.0 58 Shubitowski et al. 2001 AY008774 R: TTTGCTGCATATATCGATCTGG COR003 microsatellite 8 F: TAGGGAAACTCCTCAAAGCC 186-206 3.0 58 Hopman et al. 1999 AF083446 R: GAAACCAAAACCTTCATCCA COR012 microsatellite 8 F: TCTAGGAAAGACCCATCACG 162-176 2.0 58 Hopman et al. 1999 AF083455 R: AGTAAGTGGAGGCCAAGGAT COR056 microsatellite 8 F: AGATTCCAGGCATTAGGACC 184-210 3.0 58 Ruth et al. 1999 AF108373 R: TCAGGGACAATCTTCCTCAAG COR097 microsatellite 8 F: GGGATTTCTGAGATGCTGAA 236-242 1.5 58 Tallmadge et al. 1999 AF154950 R: ATGGCTGGCTAGAGTTTGTG DSC2 desmocollin 2 8 18q12.1 F: GTCTTTGTGGCCTAGCTGGA 205 2.0 58 Shubitowski et al. 2001 AY008781 R: GTTGCTTGGTTGCCCTAGAA FLJ11021 hypothetical protein FLJ11021, 8 12q24.31 F: CCTTGCCAAAGCATCTTTC 167 3.0 58 Testis cDNA library similar to splicing factor, R: GGAACGCAAGTAACTCCTCA #AM022_C01 arginine/serine-rich 410 GALR1 galanin receptor 1 8 18q23 F: CTTCTTCACCGTCTCCATGC 193 2.0 58 Shubitowski et al. 2001 AY008783 R: GAAGAGGCGCTGGTGGTAT HSPC039 HSPC039 protein 8 18q21.1 F: GAATTCTCCCTGAGATCAGAG 310 3.0 58 Testis cDNA library R: AAAAGTGTACCGGACTGTCAC #AM002_C06 LAMA3 laminin, alpha 3 8q14-q15 18q11.2 F: CAACATCTTCCAGAGGGCTCAT 152 3.0 58 Testis cDNA library R: CCATTTCCCGTCATTGAACTTC #AM004_A09; Milenkovic et al. 2002 LEX023 microsatellite 8p13-p12 F: GGATGAAACAGGGAAGGAAA 246-268 2.0 58 Coogle et al. 1996, AF075625 R: CCAACGGATTCATGAAAGCTA Lindgren et al. 2000 LEX029 microsatellite 8 F: TGGGGTGTCACTGCTTCTC 260-268 2.0 58 Coogle et al. 1996 AF075631 R: ACTGAGGGCCAGGTTTCTAA NARS asparaginyl-tRNA synthetase 8 18q21.31 F: GCTGGACAAACCGAGGGTAT 776 3.0 50 Testis cDNA library R: TGCGTATTTGGGATAGTGAGG #AM026_B03 SART3 squamous cell carcinoma 8p16-p15 12 F:GTGACACTTGTTTTATAGCAATTCTG 241 2.0 58 Fetal cDNA library, G62164 antigen recognized by T-cells 3 R: CAAAATACATCCATATTTGAATGC EST#1135; Lear et al. 2001 SG32 microsatellite 8q14-q16 F: TGTTCCAAAATGGAGGGTGAGCC 139 3.0 58 Godard et al. 1997 U90607 R: CCACAGGCTCTTAAAACCAGAAGC TCF1 transcription factor 1, hepatic 8 12q24.31 F: TAGCTCCATTCCTGGCACTC 188 2.0 58 Caetano et al. 1999 AF130784 R: TGAGGAGGCAGACCTGAGTT TYMS= thymidylate synthetase 8q12-q14 18p11.32 F: GCCCTGCTCACCTACATGAT 194 2.0 58 Caetano et al. 1999`; AF130786 TS R: TCCATGGAAGGTTACAAAGTGA Lear et al. 2000 UBE2L3 Ubiquitin-conjugating 8 22q11.21 R. Brandon pers. comm. 297 4.0 TD60 Fetal cDNA library enzyme E2L 3 EST#426 UCD046 microsatellite 8 F: GCCAAACGCTGGAGGGTT 230-238 2.0 58 Eggleston-Stott et al. 1996 U25171 R: CCACATTCACACACATGCACAC UM033 microsatellite 8 F:CATTGTCCTGAGCAAGTC 126-140 2.0 58 George et. al 1998 AF195579 R:CTATCCGTCAAGTGTTTC UM034 microsatellite 8 F: TTGAAACCCTTCAGACCC 102-117 2.0 58 George et. al 1998 AF195580 R: CAGAGAGCAAGTGTGAG UMNe070 microsatellite 8 F: TGGGCATTATTTCACAGTATGC 150-152 1.5 58 Roberts et al. 2000 AF191703 R: TACATTAGGCCTGGAATGGG VAPA VAMP (vesicle-associated 8 18p11.22 F: TAGCAGATGTCAGTTGCACATTC 254 3.0 TD60 Fetal cDNA library G62203 membrane protein) R:AAGGAGAAAATTTACACTGTAAGGC EST#837 ECA9Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT053 microsatellite 9 F: CACTCATCAAGCCATGCTGT 286 2.0 58 Swinburne et al. 2003 AJ507670 R: TGCCACAGAGTAGCTGATGC AHT096 microsatellite 9 F: CCCTATGCCAGGCACTGTAT 241-251 2.0 58 Swinburne et al. 2003 AJ507713 R: GATCTTATAGCTTCTCACTACA ARPC3 actin related protein 2/3 9 (S) 12q24.11 F: CAGTAAAGGGAGCCTGGGCAG 192 3.0 58 Fetal cDNA library G62180 complex, subunit 3 (21 kD) R: TCAAATCACCCATCAACAGCC EST#529 ASB05 microsatellite 9q16-q18 F: TCGAGGAGCTCATGACCTGG 115 2.0 58 Breen et al. 1997 X95320 R: TTGTACAACTCTCCACCATAGC ASB21 microsatellite 9 F: TCTTTGGGATTTTCCCTGCAGC 168-178 2.0 58 Irvin et al. 1998; X93535 R: CTGATTGATGAGAAGAAGGC Lear et al. 1999 COR008 microsatellite 9 F: TAAGTGCTGAGTCTGGGACC 240-264 1.5 58 Hopman et al. 1999 AF083451 R: TGGTAGATAGCGTCTGGAGG COR013 microsatellite 9 F: TTCCCCTGGGTCCTAAATAC 248-254 2.0 58 Hopman et al. 1999 AF083456 R: CCTTTTCCCCATAGGTCTGT COR093 microsatellite 9 F: GAACCTGGGCTGCTGAAG 251-263 2.0 55 Tallmadge et al. 1999 AF154946 R: GGCACCAAAAGGGAATTAGT COR098 microsatellite 9 F: GCAACAGATGTTGGCTCAG 235-251 2.0 58 Tallmadge et al. 1999 AF15495111 R: GGAGATGTCCTTGACCACAG HMS03 microsatellite 9 F:CCAACTCTTTGTCACATAACAAGA 151-169 2.0 58 Guérin et al. 1994 X74632 R: CCATCCTCACTTTTTCACTTTGTT HSPC038 HSPC038 protein 9 8q22.3 F: GACACCTTTGACTCTTCTCAGACCTT 203 2.0 58 Fetal cDNA library = R: EST#547 LOC5112 TTTATAACAAGGATGGACTGATTTTCA 3 G HTG08 microsatellite 9 F:CAGGCCGTAGATGACTACCAATGA 188 3.0 58 Marklund et al. 1994 AF169292 R: TTTTCAGAGTTAATTGGTATCACA LEX019 microsatellite 9 F: TTCCCTTTTCCTCACATCCT 157-161 3.0 58 Coogle et al. 1996 AF075621 R: TTTTAGGTTCATCTATGTTGTTGC LEX070 microsatellite 9 F: CATCTCATAACCGTGGATTGA 233-250 2.0 58 Coogle et al. 1999 R: ATTCGCCTCTTGACAGTCTG LPL lipoprotein lipase 9q12-q14 8p21.3 F: CAGAAGCTCCAGTCGCTTTC 137 2.0 Touc Lear et al. 2001 AZ575478 R: CCTCCATTGGGGTAAATGTC h- down 60 NKX3A NK homeobox 9 8p21.2 F: CTTCTCGCACACTCAGGTCAT 229 3.0 58 Testis cDNA library R: GAGAAGGCCTCCTCTTTCAGA #AM021_B05 NOV nephroblastoma over- 9 8q24.12 F: 243 2.0 58 Fetal cDNA library expressed gene AGAAGAAGCAGAGCATATCAGCAGA EST#1006 R: CTTGTTCGTGAGTTTGCATAATTATGG OAZIN= ornithine decarboxylase 9 8q22.3 R. Brandon pers. comm. 371 3.0 58 Fetal cDNA library LOC5158 antizyme inhibitor EST#428 2 SFTPC surfactant, pulmonary- 9p11 8p21.3 F: CCACATCCATCTCTCCCTGT 202 2.0 58 Shubitowski et al. 2001; AY008813 associated protein C R: GAACCCGAGTTCATTCAGGA Milenkovic et al. 2002 TG thyroglobulin 9 8q24.22 F: AGTGATGGGGATGCTCTCTG 210 2.0 58 Caetano et al. 1999 AF130785 R: GCTTGCTCGGCCTGTACTTA UM037 microsatellite 9 F: TCATTTTATCCTCCACCTC 108 - 118 2.0 58 George et al. 1998 AF195582 R: AAAAGGGCGTAATATGG VHL126 microsatellite 9 F: GACCCAACATTGTATGTAAGCG 85-87 2.0 58 Van Haeringen et al. 1998 Y08447 R:TGTGAATAGATATAAGTTGCTTGC ECA10Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT015 microsatellite 10p13dist F: GGGTCCTGAGCAGGTCTTTT 139-154 2.0 58 Swinburne et al. 1997 R: GAAGTAATGGCGGTCATGCT AHT086 microsatellite 10 F: CCCAATGAAGTCCAAGATGG 195-216 2.0 58 Swinburne et al. 2003 AJ507703 R: GAAATCTCTAGCAAGACCCAGG AMD1 S-adenosylmethionine 10q21 (S) 6q21 F: TGCTGTGTTGAGGACCAGTGC 267 2.0 58 Fetal cDNA library, EST#255; G62175 decarboxylase 1 R: AGTCCAACACCAGGAAGAGAGAA Lear et al. 2001 ARG1 arginase, liver 10 (S) 6q23.2 R. Brandon pers. comm.. 181 2.0 58 Fetal cDNA library EST#328 ASB06 microsatellite 10p13 F: GGCACAGATGTTAGCTCAGC 198 1.5 TD65 Breen et al. 1997 X95321 R: ATGGAACCAGCCTGGATTGC ASB09 microsatellite 10q21-q23 F: GTGCGCATGTATGTGCGTGCC 94 3.0 58 Breen et al. 1997 X95324 R: ATTTCCACAAGGGACATGAGG CASP8AP2 CASP8 associated 10 6q15 F: GATTTGCTTCCCCTGTTATTGGTC 336 2.0 TD60 Fetal cDNA library G62191 =RIP25 protein 2 R: ATCCTTGGCTACGCAAAGCC EST#595 CGA Glycoprotein hormone, alpha chain 10q23 6q15 F: TGACAGCGTGCTCTTGTTTC 186 2.0 58 Caetano et al. 1999; Milenkovic AF130749 R: TCCCACCTGCATCTAAGTCC et al. 2002 CKM Creatine kinase – 10p13 19q13.32 F: AGGTGTGGACAACCCAGGTA 200 3.0 58 Caetano et al. 1999 AF130753 muscle R: GAGCACAGCACCAATAGCAC12 COL10A1 Collagen, typeX, 10q21-q22 6q22.1 F: CGACCCAAGAACTGGAATCT 204 1.5-3.0 65 Caetano et al. 1999; AF130754 alpha 1 R: ACCCGGTCATTTTCTGTGAG Mariat et al. 2001 COR015 microsatellite 10p13prox F: GGTGTGGAAACATTCCGTAT 217-237 1.5 TD60 Hopman et al. 1999a AF083458 R: ACTGCATGTGTGGGAGAGAT COR020 microsatellite 10 F: TCTCTACCGCAAGTGAAACC 150-164 1.5 TD60 Hopman et al. 1999a AF083463 R: CTGAATTGTAGGACATCCCG COR045 microsatellite 10p13dist F: TCTCTACCGCAAGTGAAACC 150-164 3.0 TD65 Hopman et al. 1999b AF108362 R: CTGAGCCCTTAACTTGTGGA COR048 microsatellite 10p13-p14 F: GATTGGGATGCAAAGATGAG 167-189 2.0 58 Ruth et al. 1999 AF108365 R: CAAGAGGATTGGGAACAAAGG COR083/ microsatellite 10p13prox F: TCATCCTTGGGACTGTACTTG 272 1.5 58 Tallmadge et al. 1999 AF154936 COR102 R: AGTGTTTGTGTTCCTGCCTC COR085 microsatellite 10 F: GTCATGACGTCTGGCACTC 150 1.5 58 Tallmadge et al. 1999 AF154938 R: AGCTCCCATGTAGCCTCAC HMS02 microsatellite 10 F: ACGGTGGCAACTGCCAAGGAAG 218-236 1.5 TD60 Guérin et al. 1994 X74631 R: CTTGCAGTCGAATGTGTATTAAATG LEX008 microsatellite 10 F: AAACTGTCACAACGGTTAGGAC 419-403 3.0 TD65 Coogle et al. 1996 AF075611 R: CGAAAAAGCCACTTGAGGTC LEX009 microsatellite 10 F: AAAGCCGTAAGATTGGGACA 366-379 3.0 58 Coogle et al. 1996 AF075612 R: TCCATTGTGAGGGTGTAACA LEX062/ microsatellite 10p12 F: GCTCTCAGTAACCTCGATGTT 209-215 3.0 TD65 Coogle & Bailey, 1999 AF075662 LEX066 R: ATTAAGGAGAAGGTGGAAAAGAC ME1 Malic enzyme 1 10q12-q13 6q14.2 F: GTGCAATTTTTGCCAGTGGC 150 3.0 58 Godard et al. 1998 R: CTTATCCGTGATATGCCTCAG NV007 microsatellite 10 F: TCAGCGACAATCTTCCTCATACA 122-126 3.0 TD65 Røed et al. 1997 AF011402 R: ATTCACACCTCCCCCAGAAATNV018 microsatellite 10 F: GGAGGAGACAGTGGCCCCAGTC 112-142 3.0 TD65 Røed et al. 1997 AF011404 R: GCTGAGCTCTCCCATCCCATCG NV067 microsatellite 10 F: GCTCACTCAACTCCCAGAG 187-195 2.0 58 Roed et al. 2000 AJ245764 R: GGATTAGATTACCCAGACAACT PEX7 Peroxisome biogenesis factor 7 10q22-q23 6q23.3 F: CGCTATGCCTGCTTGAGGTAC 330 1.5 60 Fetal cDNA library; G62199 (S) R: TCAATAGAGTCTACGGAGCTCCAG EST#710; Lear et al. 2001 RYR1 Ryanodine receptor 1 10p15 19q13.2 F: CTGGACGTGCTGTGTTCC 120 1.5 58 Chowdhary et al. 1992; Ishida et D83218 R: GATGAGGTTTGTCTGCAGC al. 1996; Godard et al. 1998 SG17 microsatellite 10q17-q21 F: GGCCCAACGTCTATAGAAAGATGT 138 3.0 TD65 Godard et al. 1997 U90595 R: CCCCCAAATGGCTATTTTCTAA SG20 microsatellite 10p13-p14 F:GGAAAAATTTGCTTATATATGCATAC 168 3.0 TD65 Godard et al. 1997 U90598 R: GGAAAAGAACGTTTCACCTTAGCTG SG30 microsatellite 10p13prox F:ACTGGAGGGGTGAAACAGATTCAGA 160 3.0 58 Godard et al. 1997 U90605 R: GGAAGGGAGGTCATCAGAA UCD412 microsatellite 10p12dist- F: AGAGGAAGGCGACAGGTC 188-208 3.0 58 Eggleston-Stott et al. 1997 AF000011 p13prox R: CATCCGTCCATCCATCAG UCD482 microsatellite 10p13-p14 F: CACAGCCCTGACCACTGA 115-125 1.5 58 Eggleston-Stott et al. 1999 U67416 R: CCAAAACAGCCCTGGACT UM028 microsatellite 10p12dist- F: GCTCTGCCTCATTCTTATC 127-129 1.5 58 George et al. 1998 AF195575 p13prox R: TTGAGGACGGAGTGTTG UM040 microsatellite 10q21 F: CTCTTGTACATGTCTCCTTGTC 250-270 3.0 50 George et al.1998 AF195584 R: TACTTTCTCTCTTCCAAACC ECA11Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ACE angiotensin I converting enzyme 11p13 (S) 17q23.2 I. Tammen pers. comm.. 140 3.0 60 Milenkovic et al. 2002 AF26401613 ACTG1 actin gamma 11 (S) 17q25 F: GCTGAGGTGAGAACATATCCGTGG 209 1.5 60 Fetal cDNA library G62169 R: AGTGGGTCCTAAGGCTCGGCC EST#180 ASB35 microsatellite 11 F: ATGCATGAGCAGAGTGTTCTTCC 170 4.0 58 Breen et al. unpub.; Lindgren et R: TAGTACTTCTCTCTTAATATAAGC al. 1998 COL1A1 collagen, type I, alpha 1 11 17q21.3- F: TGTCCAGCAATGCCCTGA 268 2.0 60 Testis cDNA library q22.1 R: GCAAAGAAGGCGGCAAAG #AM003_B03 D-8 microsatellite 11p12-p13 F: TTTTTGTGTCTCAGGAGTGTG 95-105 3.0 TD64 Marti et al. 1998 Y10241 R: AGTCTGATGGTGGAGGAAGG EVI2A ecotropic viral integration site 2A 11 17q11.2 F: AACAACAACAAAATCGCTATGC 140 3.0 TD60 Caetano et al. 1999 AF130762 R: CGCTTGCCTACTTGTTTTGA FASN fatty acid synthase 11p14 17q25.3 F: CACCGGGTGAAGGCTGGCACT 296 1.5 55 Fetal cDNA library, G62204 R: GGTTTAATCGTGGGGAGGCTCC EST#891; Lear et al. 2001 GH1 growth hormone 11 17q23.3 F: TCAGGATGTGGGCGCCTTC 372 4.0 58 Caetano et al. 1999 AF097589 R: TGGGCGTTCTGGATCGAGTATCT GUCY2D guanylate cyclase 2D, membrane 11q15-q16 17p13.1 F: ATGAGCACTGTGCGGATTCT 201 2.0 58 Shubitowski et al. 2001 AY008791 (retina-specific) R: AGGGGGACGGAGGACTTAG HLM2 microsatellite 11q15 F: CCCACCTCCCCATCTCCCAACC 123-137 1.5 58 Vega-Pla et al. 1996; U36494 R: AAGCCAGTTCCTCAGCCCCACC Chowdhary et al. 2002 LEX068 microsatellite 11p13prox F: AAATCCCGAGCTAAAATGTA 154-168 3.0 58 Coogle & Bailey, 1999; R: TAGGAAGATAGGATCACAAGG Chowdhary et al. 2002 MYL4 myosin, light polypeptide 4 11p12.3-p13 17q21.32 F: TGTTTTCGACAAGGAGAGCA 196 1.5 58 Caetano et al. 1999; AF130773 R: AGACAGGGTGGATCAGGATG Chowdhary et al. 2002 NF1 neurofibromin 1 11q12-q13 17q11.2 F. ACAGTGGCCTCATGCACTC 221 1.5 58 Caetano et al. 1999, AF130776 R: CTGTGCCTTGTTGGAGGATT Mariat et al. 2001 NV040 microsatellite 11 F: TGGCATCTGAATGGAGAATG 144-158 3.0 58 Røed et al. 1998 AF056395 R: GATTATGATGCTACAGGGGAAAG NV090 microsatellite 11 F: TCTATGTGTCAGAATGAGGAGGT 99-105 2.0 58 Roed et al. 1998 AF056397 R: TTTTGCAAGGTAGATAGATGCC OMG oligodendrocyte myelin glycoprotein 11q14 (S) 17q11.2 F: AGTGTTGTTAACTCCTTCCCGCG 273 1.5 60 Fetal cDNA library, G62156 R: ACATACACAGGGAGGAAACTGGG EST#929; Lear et al. 2001 P4HB procollagen-proline, 2-oxoglutarate 11 17q25.3 F: GACGAGCTGACAGCAGAGAAR: 219 1.5 58 Caetano et al. 1999 AF130777 AGGACAGCCATCTTCACACC PDE6G phosphodiesterase 6G, cGMP- 11 17q25 F: CGAGCCTGTCCTTTGTTTTC 195 2.0 58 Shubitowski et al. 2001 AY008801 specific, rod, gamma R: CCCAGGAAGAGTGGCTACAG RCV1 recoverin 11q14.3dist- 17p13.1 F: GGCAGAGTTCCAGAGCATCTA 197 2.0 58 Shubitowski et al. 2001 AY008807 q15 R: CCACGTCGTAGAGGGAGAAG SCN4A= hyperkalemic periodic paralysis; = 11 17q23.3 F: GGTCTTCATCATCGTCTTCACG 118 4.0 58 Burns et al. unpub.; Caetano et HYPP sodium channel, voltage-gated, type R: CACAATGGACAGGATGACAACC al. 1999 IV, alpha polypeptide SG13 microsatellite 11q12 F: GGACTAAAGCCCAACCATCCAGC 162 2.0 58 Godard et al. 1997 U90592 R: CTCACCAGTAAGGGGTTATGGGGC SG22 microsatellite 11p14 F: GGAAATCACTGCCCCAGCCTG 112 2.0 58 Godard et al. 1997 U90600 R: GGTGGTTGGGAAAGGGTTGAGGC SG24 microsatellite 11p12 F: CTACCATTGAAGAGGGGTGGC 121 4.0 TD64 Godard et al. 1997 U90602 R: GAAACGAGCAGGAAGTGAATCTCC SKIP (SKIP for skeletal muscle and 11 17p13.3 F: GGCTTCATCCAGTAGATCC 332 3.0 58 Testis cDNA library kidney…) R: GTGATATGCCTGAGACTGAG #AM026_D09 SUI1 Putative translation initiation factor 11 (S) 17q21.2 F: TAGAGAATGTCACCACCTGAGCAGC 367 2.0 58 Fetal cDNA library , EST#221 G62173 R: AGCTGCTGCTAGTCAAGCCGC TIM22 translocase of inner mitochondrial 11 17p13 F: CCGGTGAGAGTAATTGCCTCTG ca 350 2.0 58 Fetal cDNA library membrane 22 (yeast) homolog R: CAGGACTGAAGTTTTGTGGAGCTT EST#1115 TKY10 microsatellite 11p12 F: GATCTTGGACTCGCTCACC 180 2.0 55 Hirota et al. 2001 AB048321 R: GATCTAATAGGATGTGTG TKY32 microsatellite 11q12 F: GTTCTGCCTTTTGGCTTAAT 125 2.0 58 Hirota et al. 2001 AB048338 R: TAGTAATGGGATAATAGGGC TKY33 microsatellite 11q12 F: TAGATTAGGTGCCTGGCACG 86 2.0 58 Hirota et al. 2001 AB048339 R: CCTCTCCCCCAACTCCAGAG TP53 tumor protein p53 11 17p13.1 F: AAGACTCCAGGTAGGAACTC 400 2.0 58 Lindgren et al. 2001 X91793 14 R: CAGATTACCACTACCCAGGT TRAP240 thyroid hormone receptor-associated 11 17q22-q23 F: CCAGGGGTGTAAGCATGAACTT 200 1.5 58 Testis cDNA library protein R: TATTTTCACCCTTTGGAGCAGC UCD039 microsatellite 11p13-p14 F: GCCCTTCACCGGATTTAATA 188 2.0 58 Chowdhary et al. 2002 U25168 R:GAACCCAGCACATTATCGGG UCD439 microsatellite 11p13-p14 F: GTTGATGCTCAGAGGAAGGC 207 2.0 58 Eggleston-Stott et al. 1999; U67409 R: GGTGCACAGTCCACAAGAAA 122-152? Chowdhary et al. 2002 USP6 ubiquitin specific protease 6 11 17p13.2 F: GGTATAATGTGATGAAGTCAGAC 435 3.0 TD60 Fetal cDNA library G62170 R: TGTTTGGATAATAGTTACAGATAA #188 ZNF207 zinc finger protein 207 11 17q11.2 F: TGGAAACAGTTACAGCCCTCA 370 2.0 65 Testis cDNA library R: AGCCAAGCTTCCGTCAATAAG #AM006_B05 ECA12Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ADRBK1 adrenergic, beta, 12 11q13 F: GCCCGCTCTAGAGATGAGAA 189 2.0 58 Caetano et al. 1999 AF134059 receptor kinase 1 R: CCCATCTTGGACATGTAGCC AHT27 microsatellite 12q14prox F: GAGCAAGTCTTCCTTCCACG 101-109 2.0 58 Swinburne et al. 2000 AJ271512 R: ACGTGCACACCTGTACGTGT CD20 CD20 antigen 12 11q12-q13.1 F: GTGTGCCAGGAGTTGTGCTA 204 2.0 58 Caetano et al. 1999 AF130748 R: GCATCACTGCAAAAATGCTC COR009 microsatellite 12 F: CGGTGTTCTTATTTCATGGA 122-130 2.0 58 Hopman et al. 1999 AF083452 R: GGAACGAAACACAGTGGAAC COR030 microsatellite 12 F: CTGGCTGTTTAGCATTCCAC 233-241 3.0 55 Murphie et al. 1999 AF101399 R: ACTGGCATCTCAGTTTGGAG COR058 microsatellite 12 F: GGGAAGGACGATGAGTGAC 206-228 2.0 55 Ruth et al. 1999 AF108375 R: CACCAGGCTAAGTAGCCAAAG IGF2 insulin-like growth 12q14 11p15.5 F: AGCCGTAGGGTGATTGACAG 162 4.0 58 Raudsepp et al. 1997; AF097586, factor 2 R: GTATCTGGGGGAGTCGTCCT Lindgren et al. 1998; AF020598 Caetano et al. 1999 AF020599 RKJ12 microsatellite from 12 F: CTTGCGTAATTCTGGATCAGC 200 4.0 TD60 Raudsepp & Microdissected ECA12 library R: CAGCAACAACAGCAACAACA Chowdhary, unpub. ROM1 retinal outer segment membrane 12 11q13 F: CAGGTGAGTCAGCAACGTGT 195 2.0 58 Shubitowski et al. 2001 AY008811 protein 1 R: GTTTCTCCCTCCCCATTGAT SG08 microsatellite 12 F: GAGTTCATTCTTTTTCGTGGCTG 128 1.5 50 Godard et al. 1997 U90590 R: GGAAACACCCTAAGTGTCCCTTG SG10 microsatellite 12p13 F:CATCCATCCTTTCCAGCTCGATATTC 172 3.0 58 Godard et al. 1997 U90591 R: CAAGACCGTAACTCAGGAGCCC TKY286 microsatellite 12 F: TCCTTAACAACAAAGACACC 94-112 2.0 58 Tozaki et al. 2000 AB033937 R: ATGGGCATATTAAGATGCAC UCD411 microsatellite 12 F: TGCTGCGAGTCAGTGGCT 77-93 2.0 58 Eggleston-Stott et al. 1999 U67405 R: ATGCCTCACATCCCTGGGT UCD497 microsatellite 12 F: GTGGGAGGCAGCAGGAAC 105-109 2.0 58 Eggleston et. al 1999 U67419 R:CCCCAGACACCGTGTGAT ECA13Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ASB01 microsatellite 13 F: AGCAGAAACCCACTCAAGCC 153 2.0 58 Breen et al. 1997 X95316 R: GCATAATACCCTCAAGGTC ASB37 microsatellite 13q11-q12 F: CCTGCAACTTTTTCCCAGCC 125-138 1.5 TD64 Irvin et al. 1998; AF004767 R: GGCAGATGTTAGCTCATGGC Lear et al. 1999 COR069 microsatellite 13 F: AGCCACCAGTCTGTTCTCTG 265-283 2.0 55 Tallmadge et al. 1999 AF142606 15 R: AATGTCCTTTGGTGGATGAAC EIF3S8 eukaryotic translation initiation 13q12-q13 16p11.2 F: GCCTAGTGGAAAATAATGAGCGG 217 1.5 58 Fetal cDNA library , EST#946; G62158 factor 3 (S) R: AATTGGGGTGCAGTTTAGAACTT Lear et al. 2001 ELN elastin 13p13 7q11.23 F: CAGGCCTGTAGGCTGCTTAT 182 3.0 58 Caetano et al. 1999; AF130761 R: CACCTGTGAAGAGGGCAGAT Milenkovic et al. 2002 GUSB glucuronidase, 13 7q21.11 F: CCAACGAAGCAGGTTGAAGT 198 2.0 58 Caetano et al. 1999 AF134223 beta R: AAAACTGCTGCCCGATAGAG HBA1 hemoglobin, 13qter 16p13.3 F: CTGTCGAATCTGAGCGACCT 170 2.0 58 Oakenfull et al. 1993; AY008792 alpha 1 R: GTGGATCGAGGGAGTGTCAG Shubitowski et al. 2001 LEX041 microsatellite 13 F:TATTTTCTGAATGCTTCTGTGC 149-162 3.0 58 Coogle et al. 1997 AF075643 R: CTCTACACCCAATGCCTGAT NV098 microsatellite 13 F: TGCAATGACCATCAGAACTTC 167-169 4.0 50 Roed et al. 1998 AF056398 R: CGGTGGTTTTGGAAATGAA PRM1 protamine 1 13q14-q15 16p13.2 F: CCTCCTATGAGGTCACATG 407 3.0 58 Lindgren et al. 2001 L10654 R: CCTCGCAGACCAGAGCTGT TKY031 microsatellite 13p15 F: CTACTCACCAGCCTGCAAAG 95 2.0 58 Hirota et al. 2001 AB048337 R: CTGCTTGTCTTCTCATCTCC UM030 microsatellite 13 F: CCGTGAAGTCACAGACTTAG 127-143 2.0 58 George et al. 1998 AF195577 R: ACAGTTTCTACAACAAACTGA VHL161 microsatellite 13 F: GACCCAACATTGTATGTAAGCG 160-164 2.0 58 Van Haeringen et al. 1998 Y11661 R: TGTGAATAGATATAAGTTGCTTGC VHL047 microsatellite 13 F: GTTTGCTGTGGTTACCAGGCAGA 126-144 4.0 58 Van haeringen et al. 1998 X86449 R:GCAAATTGAATATTTGAAGTTGAGAC ECA14Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ADRB2 adrenergic, beta-2-, 14q14dist- 5q31-q32 F: CTCGTCCATCGTGTCCTTCT 202 2.0 58 Caetano et al. 1999 AF130746 receptor, surface q16prox R: GGCTTTGTGTTCCTTCAAGC AHT029 microsatellite 14q13 F: ACTCATTCATTCACAAATCCCC 270-292 2.0 58 Swinburne et al. 2000 AJ271514 R: AGAAAATTCCCTCCTGTCCC AHT083 Microsatellite 14 F: CTGACTATCCCCCAAAACACA 102-114 2.0 58 Swinburne et al. 2003 AJ507700 R: ATGGCATTGCTTACATATCCTG AHT088 Microsatellite 14 F: TCACATGTGCCCTATGAATCC 307-318 2.0 58 Swinburne et al. 2003 AJ507705 R: CCTGTCAATGGAGGAATGGA CAMK4 calcium/calmodulin- 14q23-q24 5q21-q23 F: CCCTTTCTCAGGGCAGAAG 199 2.0 58 Caetano et al. 1999 AF115747 dependent protein kinase IV R: CCTTTGTGTGTCCAGCAATG CANX Calnexin 14 5q35 R. Brandon pers. comm. 300 3.0 TD60 Fetal cDNA library EST#487 COR002 microsatellite 14 F: CTTGAGCACCCAGTAACACC 224-232 2.0 58 Hopman et al. 1999 AF083445 R: CCAGGAATCTTCTCTACCGA COR103 microsatellite 14q12-q13 F: GGGAGTGTGTCCAGTTTGTC 167-169 2.0 58 Swinburne et al. 2000 R: CCABATAAAGCCCAAATCCT COR104 microsatellite 14q12-q13 F: GGGAGTGTGTCCAGTTTGTC 177-178 2.0 58 Swinburne et al. 2000 R: CCAGATAAAGCCCAAATCCT CSPG2 Chondroitin Sulfate Proteo- 14q26-q27 5q14.3 F: TTCGCTTACAAGAAAGGCCTGA 282 3.0 58 Fetal cDNA library glycan 2 R: CAGCATTCATACATGAACATTCAAAAC EST#1108 DPYSL3 Dihydropyrimidinase-Like 3 14q14dist- 5q32 F: GTTTCCCAAGCCTTCTCCCTTA 117 4.0 TD60 Fetal cDNA library q16prox R: GCTACCACAGATCACAGGGAGATAG EST#1116 HEXB hexosaminidase B 14q27 5q13 F: ACGCTGTGGCTTACCATTTT 137 2.0 TD60 Caetano et al. 1999 AF115752 R: TCATGAATGCTTCAGGTCTCC HMGCR 3-hydroxy-3-methylglutaryl- 14q27 5q13.3-q14 F: TGTGGCCAGCACTAACAGAG 193 2.0 58 Shubitowski et al. 2001 AY008793 Coenzyme A reductase R: CCACCAAGCTGCCAGAGTAT HTG29 microsatellite 14 F: CTATTTCCAGTCTTTGTGTGT 110 3.0 58 Lindgren 2000 R: CCATAATAAAACATTAAAGATCAG16 LEX047 microsatellite 14 F: TATAATAATGTGTCTTGGTGTG 237-245 3.0 58 Coogle et al. 1997 AF075649 R: TGTTAATCAGGGTTCTCC LEX078 microsatellite 14q27 F: TGTGCGCATTTAACCACTGT 230 1.5 60 Bailey et al. 2000, AF213364 R: TTCATGCACTCCACTTCAGC Lear et al. 2000 PDE6A phosphodiesterase 6A 14 5q31.2-q34 F: GGGCCAAGGTCATCTCAGAC 137 2.0 58 Shubitowski et al. 2001 AY008799 R: AGCCTGCAGATTCTCCTGAA SOD2ps Equine superoxide dismutase 2, 14q22.3-q23 F: GACAAACCTGAGCCCCAAT 148 2.0 58 Caetano et al. 1999 AF130781 mitochondrial pseudogene R: CTTATTGAAGCCGAGCCAAC SPARC secreted protein, acidic, 14q14dist- 5q31.3-q32 F: ACCCACTAACGGTCCCATTT 199 2.0 58 Caetano et al. 1999 AF115756 cysteine-rich q16prox (S) R: CTGGCAGCCAATACCCTAAA UM010 microsatellite 14q14 F: TACAGCCATTGGAAATCTAC 110-120 3.0 58 Meyer et al. 1997 AF195129 R: CACCATTACATTTTCCCAG UM032 microsatellite 14q14dist- F: AAATGGTCAGCCTCTCCTC 141-149 2.0 58 Swinburne et al. 2000 q16prox R: TGTCTCTCTAGTCCCACTCCTC VHL209 microsatellite 14 F: TCTTACATCCTTCCATTACAACTA 84-98 3.0 TD60 van Haeringen et al. 1998 Y08451 R:TGATACATATGTACGTGAAAGGAT ECA15Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl Ta References Accession name/ product 2 number symbol Horse Human size (bp) (mM) ASB02 microsatellite 15q21.3-q23 F: CCTTCCGTAGTTTAAGCTTCTG 182 2.0 58 Breen et al. 1997 X95317 R: CACAACTGAGTTCTCTGATAGG ASB15 microsatellite 15q21 F: GTCCCAAAGGGACTCAGGAAGG 144 3.0 58 Breen et al. 1997 X95330 R: TGGATGCCAGTGCATAGACAG ASB19 microsatellite 15q21.3-q23 F: GAGTTGGAGCTCAAGTCTGTC 193 2.0 58 Breen et al. 1997 X95334 R: GTTTAGCAACTACAGCGTAGG B-8 microsatellite 15q14-q21 F: TCCTCAGTCCTTTCTCATGC 80-102 2.0 58 Marti et al. 1998 Y10240 R: AGCTGAAGGCAATCTGTACC COR014 microsatellite 15 F: CTATCATGTCAGGGACCAGG 143-167 3.0 55 Hopman et al. 1999 AF083457 R: CTGCCCTAGTTAGCAACCAA COR042 microsatellite 15 F: CAAATGTGCTCCATCTCCAAC 153-155 2.0 58 Ruth et al. 1999 AF10835 R: GCCAGCTCCCTTACTCTGTA COR075 microsatellite 15 F: GCCCTAGTTAGCAACCAACA 192-214 2.0 58 Tallmadge et al. 1999 AF142612 R: AAGATTGATTCCTCAGCACG COR076 microsatellite 15 F: GTCCTCACTCCTCTCACTGG 208 2.0 TD60 Tallmadge et al. 1999 AF142613 R: ACAGTCTGTCCACAGGGAAG COR077 microsatellite 15 F: AGGGAGCATTTGAACCAAGT 152-154 2.0 58 Tallmadge et al. 1999 AF142614 R: CAATGGTGGTAGAAGCAAGG HMB2= microsatellite 15 F: GTGCCACCACCTCTGTGATT 106 2.0 58 Binns et al. 1995 Y07730 AHT2 R: TGGAGAAGGATCTTGGGCTC HMS01 microsatellite 15 F: CATCACTCTTCATGTCTGCTTGG 170-180 2.0 58 Guérin et al. 1994 X74630 R: TTGACATAAATGCTTATCCTATGGC IL1B interleukin 1, beta 15q13 2q14 F: CTGCATGCTGCTCATCACTT 212 2.0 58 Caetano et al. 1999; Milenkovic AF130767 R: TGGGGTACATTGCAGACTCA et al. 2002 IL1RN interleukin 1 receptor 15q13-q14 2q14.2 F: TATTCCCAGCACGTCGATG 403 2.0 58 Lindgren et al. 2001 D83714 antagonist R: CAGAACAGCATCAGATTCCAA LEX046 microsatellite 15 F: ATAAGCCAATCCACTTTTCC 115-127 3.0 58 Coogle et al. 1997 AF075648 R: ATTACCACCCCATTTCCTT LEX051 microsatellite 15 F: CCTACGTGTCTCTTTCTCTTT 130-144 2.0 58 Coogle et al. 1997 AF075653 R: GTAACGCAATAATACAGCACT NV083 microsatellite 15 F: TTGTTGCTGTTGCTGGTG 121-123 2.0 58 Bjernstad et. al 1999 AJ245771 R:TGGAATGGAGGATGAACAGATA SDNSF; neural stem cell derived neuronal 15q22 2p21 R. Brandon pers. comm. 397 3.0 58 Fetal cDNA library LOC90411 survival protein EST#215 [THE1] 17 SFTPB surfactant, pulmonary- 15 2p12-p11.2 F: CTACCCACGCCCAGAGTTAC 206 2.0 58 Shubitowski et al. 2001 AY008812 associated protein B R: CGTGAAGGTATGAGGGGTGT SG06 microsatellite 15q24 F: GGGCCTGGTTTTCCTTCTAA 167 3.0 58 Godard et al. 1997 U90588 R: GCATTTGTGGCCTGTGTCATA SG21 microsatellite 15q23 F: GCACCAACTCCACTTTTGTCCAG 120 2.0 58 Godard et. al. 1997 U90599 R:GCTGAGTATTTATGTTGCTCTAAAGC TKY011 microsatellite 15 F: ATGAGAGAGGTCACCAAAAT 130 2.0 55 Hirota et al. 2001 AB048322 R: CCCTGCCAACAAAAACCTTG TKY104= microsatellite 15 F: GAAAAGACATCAGCAAGTGGTC 153 2.0 58 Mashima et. al 2001 ABO53343 RC07 R: GCCTAAAACTAACTTCCAGAAGG ECA16Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp)0 AHT014 microsatellite 16 F:GAGAAGCAATCACACACACACA 138-151 2.0 65 Swinburne et al. 1997 R: GCTCTTTCCATGGGTGGTAG AHT037 microsatellite 16q13 F: ATTTCACCCACTCCCAACC 206-218 2.0 58 Swinburne et al. 2000 AJ271522 R: TTTCGTTTGCGACAATATGG AHT038 microsatellite 16q21.1 F: TTCATGGCCTTCAAAACTCC 130-140 2.0 58 Swinburne et al. 2000 AJ271523 R: CCAGCTGGGGATACTTACCA AHT060 microsatellite 16 F: GGTCAAGCTTTTGGTTTTTCC 282-308 2.0 58 Swinburne et al. 2003 AJ507677 R: CCTAAGGAAGAGCTGTTCTTGC AHT063 microsatellite 16 F: CCATGTGTTCACAAACTCGG 108-110 2.0 58 Swinburne et al. 2003 AJ507680 R: GAGGGTTGGAACTTTCAGTCC AHT081 microsatellite 16 F: AACTCAGGGGCAGACAAATG 198-200 2.0 58 Swinburne et al. 2003 AJ507698 R: TTGGAACTTTCAGTCCAGGG AHT091 microsatellite 16 F: TAGCTGTCTGCAAAGGCTCA 108-118 2.0 58 Swinburne et al. 2003 AJ507708 R: CCAGTGTTCCACATGCCTC ASB42 microsatellite 16q22 F: GTTACTGCTCACCAACAAGG 106-114 3.0 TD60 Irvin et al. 1998; AF004772 R: GCTCCAACAATCCCTACTGC Lear et al. 1999 COR039 microsatellite 16 F: ACGTTGGCTCTGCTTTATGT 254 2.0 58 Murphie et al. 1999 AF101408 R: ATCCAGGCTCTGAATCCACT COR052 microsatellite 16 F: CAGGTGGTGCTAGTTTTCCA 230-232 2.0 55 Ruth et al. 1999 AF108369 R: ACCACTGCTTTGAGGACCTAG COR064 microsatellite 16 F: TCCATACATGTGTGAGGGC 188-198 3.0 55 Tallmadge et al. 1999 AF142601 R: AAGATGGCTTACAAGGATTATG CP ceruloplasmin (ferroxidase) 16q25 3q23-q25 F: ATTGAGCCAATCGGAGTGAG 200 2.0 58 Caetano et al. 1999; AF134057 R: ATGATACACAAGCGGGTTCC Godard et al. 2000 CRTAP cartilage associated protein 16q21 3p22 F: CCATCCTCTGATCCAGCAAAGAT 274 2.0 58 Fetal cDNA library R: EST#1092 GAATGAGTGAAAATAGACTCCCTCTG GLB1 galactosidase, beta 1 16 3p21.33 F: AACGACACTCAAAAGCCAAGA 196 2.0 58 Caetano et al. 1999 AF130765 R: GGCAAAATTGGTCCCACCTA GPX1 glutathione peroxidase 1 16 3p21.3 F: TTTTCGGCCCCTCAATATTCC 244 3.0 58 Fetal cDNA library R: AGAAGAGAGAAACTGAGGGCCAA EST#319 HTG03 microsatellite 16q13 F:TAACCTGGGTGCAAAGCCACCCAT 119-129 2.0 50 Ellegren et al. 1992 AF169164 R: TCAGGGCCAATCTTCCTCAC HTG13 microsatellite 16 F:TTAGCACGGGGAGATCGGATCCTG 120 2.0 58 Marklund et al. 1994 AF169297 R: GGTCTCCCTCTCCATTCACCCTGC I-18 microsatellite 16q23-q25 F: CAACAAAGATGTTGCAAGGG 113-187 3.0 58 Marti et al. 1998 Y10244 R: TGTGCCTCTTGTCTCTTAGG LEX048 microsatellite 16 F: CATAGTGCCCTCAAGTTC 164-168 3.0-5.0 58 Coogle et al. 1997 AF075650 R: TGAATTGGATAAAGAAGATGTA LEX056 microsatellite 16 F: GACCTACAGGCCACTCATCAA 213-229 2.0 58 Coogle et al. 1997 AF07565818 R: GGCAGTTTCCTCCATCCTTA LEX059 microsatellite 16 F: TGAAATGTCACCTTCTCAGAG 229-235 2.0 58 Coogle et al. 1997 AF075660 R: ACTTCGTGGTGGACACTTGC LTF Lactotransferrin 16q23 3q21-q23 F: AACCCGCTATTATGCTGTGG ca 400 2.0 58 Singh et al. unpub. AJ010930 sequenced R: GCTGGCAGAGAAGAAGTTGG MBNL muscleblind (Drosophila)-like 16 3q25 R. Brandon pers. comm. 235 4.0 TD60 Fetal cDNA library EST#496 MPZ002 microsatellite 16 F:GATCCCCCCTATTTTATATACAG 77-101 3.0 TD60 Breen et al. 1994 Z28342 R:AGGTTCTCATTCTACCTACAAGG PB1/ polybromo 1 16 3p21 F: CAGTTCCATGGCAACAAGTA 195 3.0 58 Testis cDNA library FLJ10645 R: CTGTACATCACAAGGCCATT #AM007_H02 PDCD6IP programmed cell death 6- 16q21.3 3p22.1 F: GAGGAATTAAACCCACAAGTGAAAT 155 3.0 55 Fetal cDNA library interacting protein R: EST#296 AATTAAACCAAATCAATAAACCAAGAG A RARB retinoic acid receptor, beta 16 3p24 F: ATGCGAGCTGTTTGAGGACT 149 3.0 58 Caetano et al. 1999 AF134234 R: TTCCCAGAAAGATCCCAAGTT RHO rhodopsin (retinitis pigmentosa 4, 16 3q21.3-q24 F: CACTTCACCATCCCCTTGAT 178 2.0 58 Caetano et al. 1999 AF130780 autosomal dominant) R: AGCTGCCTGTAGGGACACAG SLC21A2 solute carrier family 21 16 (S) 3q21 R. Brandon pers. comm. 301 3.0 58 Fetal cDNA library (prostaglandin EST#348 transporter), member 2 TGFBR2 transforming growth factor, 16q21-q22 3p22 F: GAGCTTTATCACTCATGGGTCATC 207 3.0 58 Fetal cDNA library G62195 beta receptor II (S) R: CATGAGTACTGCGGAAGTGTTCC EST#656; Lear et al. 2001 TKY279 microsatellite 16 F: AATGAATGAGACTTGAACCC 119-133 3.0 TD60 Tozaki et al. 2000 AB033930 R: TCTGCTGTTTTAGGCTCGG UCD505 microsatellite 16 F: ATCACTCTCTTGTTGAGATAAC 175-197 4.0 50 Eggleston-Stott et al. U67421 R: GGGATTTCCTTCTTTCTC 1997 ECA17Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) BRCA2 breast cancer 2, early onset 17q22 13q12.3 F: GTGACACTCCAGGTGTGGAT 700 4.0 50 Milenkovic et al. 2002 AF317283 R: GCCGATCTTCTGCTTCTATCA Primers based on human sequence. Sequence identity confirmed COR007 microsatellite 17q12-q13 F: GTGTTGGATGAAGCGAATGA 153-175 2.0 58 Hopman et al. 1999 AF083450 R: GACTTGCCTGGCTTTGAGTC COR032 microsatellite 17q22dist- F: GCCCTCTTAGAGCATTTTCC 247-253 3.0 58 Murphie et al. 1999 AF101401 q23 R: CAGAGATGGCTGGAGTAAGG COR067 microsatellite 17 F: AGGCTGGGAAATGACAAATG 212 3.0 58 Tallmadge et al. 1999 AF142604 R: TGTGCCTGGAGCTGTTCTAA COR072 microsatellite 17 F: TTCCTCATTGCTTCCTGAGT 135-155 4.0 60 Tallmadge et al. 1999 AF142609 R: TCACTGGATAGTCTGCTGAGG COR105 microsatellite 17 F: TTTCCTCATTGCTTCCTGAG 174-192 3.0 58 Swinburne et al. 2000 R: CCCAAGGTCTGTCTTGCTCTC DCT dopachrome 17 13q32 F: CACCGGTACCATTTGTTGTG 180 4.0 50 NT_009952 tautomerase R: GCCAATGAGTCGCTAAAAGC Primers based on human sequence. Sequence identity confirmed DZIP1= zinc-finger protein DZIP1 17 13q32.1 F: CTTTGGGTTCACTGACAC 848 2.0 60 Testis cDNA library KIAA0996 R: AAGGATAGAAGAGCTGGG #AM006_B09 HMS25 microsatellite 17q25-q26 F:CAAACATAAAATATGCATGTCCATGT 124 3.0 58 Godard et al. 1997 U89811 R: CTTTTGGATATGTAAGGCTTGAGG HMS41 microsatellite 17q21.3-q22 F: AAAGTCTTCATTTGAAGTTTCCTAAG 113 3.0 58 Godard et al. 1997; Godard et al. U89812 19 R: GACTAAGTAGATGAGATGTGTTTGG 1999 LEX055 microsatellite 17 F: ACAGGGACACAGGTGGTAGC 215 2.0 58 Coogle & Bailey 1997 AF075657 R: TGGATTTCCACTGTTACTTAT LEX076 microsatellite 17 F: TTACCTCAGCCACAATCTTCTT 222-226 2.0 58 Bailey et al. 2000 AF213362 R: TTGCCAGACACAGAGAAGTG MTMR6 myotubularinRelated Protein 6 17q12-q13 13q12 F: GGGACGGGAATCTTAATATTTG 190 3.0 58 Fetal cDNA library G62207 (S) R: TTCTCAGGCCATATGTGAGCAC EST#880 NV024 microsatellite 17 F: CCACTGTGGAAAAGACTGAAAG 161-163 2.0 58 Roed et al. 1997 AF011405 R: TGTACTTCCTTGAAACCCAACA RB1 Retinoblastoma 1 17 13q14.2 F: CGAACGTGTGCTCAAAAGAA 201 2.0 58 Caetano et al. 1999 AF130779 R: AAATTGGCAGGAAAGGGATT RC01= microsatellite 17 F: ACCCTGATGGTGGTTTTCAG 213 2.5 50 Mashima et al. 2001 AB053341 TKY102 R: AAACTGTTCAGGGGATTGCT RNF6 ring finger protein (C3H2C3 Type) 17q13-q14 13q12.2 R. Brandon pers. comm. 251 3.0 58 Fetal cDNA library 6 EST#127 TKY287 microsatellite 17 F: ATCAGAGAACACCAAGAAGG 224-240 2.0 58 Tozaki et al. 2000 AB033938 R: TCTCTGCTATAGGTAAGGTC UCD014 microsatellite 17 F: GCATTTGCTCACTGGCTAC 128-134 2.0 58 Eggleston-stott et al. 1996 U25266 R: ACTCCTCCACTCCCACCTA UMNe52 microsatellite 17 F: TGTCTGCTGACAGATGAATGG 88-104 2.0 58 Roberts et al. 2000 AF191690 R: CATGGCTGAATAATATTCCGTG ECA18Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT080 microsatellite 18 F: AGAACTGAGGAAAGAAGAGGGC 155-165 2.0 58 Swinburne et al. 2003 AJ507697 R: TCCCTGAGACTTAATTTCCTCA CHRNA cholinergic receptor, nicotinic, alpha 18 2q24-q32 F: GGTTTGGCTTGACGAGTAGG 205 3.0 58 Caetano et al. 1999 AF130750 polypeptide 1 (muscle) R: TGTTGATGCTTTGCACCTTC COL3A1 collagen, type III, alpha 1 18 2q31 F: GTCATTGCTGGTCAAGATTACCAAC 198 3.0 58 Fetal cDNA library G62193 R: CAGGATGAAGGGAGAGAGTCCC EST#619, 1033 COR096 microsatellite 18 F: CCCCTCTTTTGCTTGAGAAT 307-319 3.0 58 Tallmadge et al. 1999 AF154949 R: GCGTGTATGTGAGGATTGAAG COR101 microsatellite 18 F: CAATATAAGTGCACGCCTTC 232-272 2.0 58 Swinburne et al. 2000, D. R: TGGACCTTGAGGGTATGATG Antczak pers. comm. CXCR4 chemokine (C-X-C motif), receptor 18q21 2q21 R. Brandon pers. comm. 194 3.0 58 Fetal cDNA library 4 (fusin) EST#337 GCG glucagon 18 2q36-q37 F: GCTTGGTTTCAGATCCCAGT 214 3.0 55 Shubitowski et al. 2001 AY008785 R: AGGGGTGACAGCAGTATTGG HLM3 microsatellite 18 F: GAAGGTAGAAAAGGAGGGCTAGAAC 123-131 2.0 58 Vega-Pla et al. 1996 U36495 R: TCTAGAGGACCATTCTCTGGGCTGTG HMS46 microsatellite 18 F: GTCTCAGCCAAAAGGTATTCAAGC 141 3.0 58 Godard et al. 1997 U89814 R: TGGCACCAATATAGGTCACCTGG HOXD Homeo box D9 18 (S) 2q31-q37 F: AGACGCTTGAGCTGGAGAAG 103 2.0 64 Lyons et al. 1997 R: TTGACCTGTCTCTGTGTGAGG HTG17 microsatellite 18 F: GCTATCCCTCCTGAGTCTTA 153 3.0 58 Lindgren et al. 1999 R: AGGTAATTTGAAATAAAATACAC HTG28 microsatellite 18 F: AATCAACTAATATTAGGCCTCCT 180 3.0 58 Lindgren et al. 1999 R: GAATACAGTTCTAGGGGCGT LEX054 microsatellite 18 F: TGCATGAGCCAATTCCTTAT 164-182 2.0 58 Coogle & Bailey 1997 AF075656 R: TGGACAGATGACAGCAGTTC MCM6 minichromosome maintenance 18 2q21 R. Brandon pers. comm. 315 3.0 58 Fetal cDNA library deficient (mis5, S. pombe) 6 EST#358 MSTN = myostatin alias growth 18 2q32.2 F: TGACTGTGATGAGCACTCCA 190 2.0 58 Caetano et al. 1999 AF097584 GDF8 differentiation factor 8 R: TCTGGGGTTTGCTTGGTGTA 20 NEB nebulin 18q21 (S) 2q22 F: TGACGTACGTAACAGTCAACGA 151 3.0 58 Caetano et al. 1999; AF130774, R: CCAAATTCTGGAGGTGATCC Lear et al. 2001 G62157 NV077 microsatellite 18 F: ATAATCTCACCGTTGCCTACTA 134-136 2.0 58 Bjornstad et. al 1999 AJ245767 R: TTAGCTATGCTTCATATCACCC POH1 26S proteasome-associated pad1 18 2q24.3 R. Brandon pers. comm. 301 2.0 58 Fetal cDNA library homolog EST#327 PROC protein C (inactivator of coagulation 18q13 2q13-q14 F: CATCATGCACCCCAACTACA 202 2.0 58 Murakawa et al. 1994; Godard D43753 factors Va and VIIIa) R: GCGGTTTCTCTTGGTCTCAC et al. 2000 SG07 microsatellite 18q21 F: GAATTTGAATGTATCTATTCTGAATG 132 3.0 58 Godard et al. 1997 U90589 R: GTGAGTTTTCAAGCTGGCATATTC TKY017 microsatellite 18q26 F: CAACTGTATGTTGACAGCACA 127 2.0 58 Hirota et al. 2001 R: CGGCCATATTAGGTTTATCTG TTN titin 18q24 (S) 2q24.3 F: CTCTGCCATAGAGAGTGCCTGG 282 3.0 58 Fetal cDNA library G62197 R: CCTTTTGGGCAGTTAGTCATGA EST#675; Milenkovic et al. 2002 UCD136 microsatellite 18 F: CTTTGGGCCTTTCCTCCAT 111-121 3.0 58 Eggleston-Stott et al. 1997 U67401 R: CGAGCCTGGGAGTGATAC UCD387 microsatellite 18 F: ACCCCCGCCCCAGCAC 78-88 3.0 58 Eggleston-Stott et al. 1999 U67404 R: TGCCCCGTCATTCTGC UMNe50 microsatellite 18 F: GTTGGAAGAGAACAACGAAAGG 121-131 2.0 58 Roberts et al. 2000 AF191688 R: GCTAAATTTCACTCCATCAGGG ECA19Marker Marker type or full name Location Primers 5’ – 3’ PCR MgCl2 Ta References Accession name/ Product (mM) number symbol Horse Human size (bp) AHT041 microsatellite 19q13 F: CGGAGGACAAACTTCCTCTG 243-255 2.0 58 Swinburne et al. 2000 AJ271526 R: GTCCTTGAAGAAGCCTGTGC AHT052 microsatellite 19 F: AGTGGAACTCCTGTTTTTCCTG 252-254 2.0 58 Swinburne et al. 2003 AJ507669 R: GATCCTGGGCAATGAGGC AHT055 microsatellite 19 F: TGAAAATACACCCAGCTACGC 147-159 2.0 58 Swinburne et al. 2003 AJ507672 R: GGGAGATATTTCTTGGCTTGC AHT094 microsatellite 19 F: CACCTCCATCACATTGGTCA 232-240 2.0 58 Swinburne et al. 2003 AJ507711 R: GGCTGGAGTCAGCTGACATT ASB07 microsatellite 19q14-q16 F:CTGGAAATTACAGTGGTCTTCTGG 153 2.0 58 Breen et al. 1997 X95322 R: AGGTTTTCAGGGGCTTGCGAAGC ASB11 microsatellite 2p17-p18??? F: CCACCTATGTGTTCAGTTCACC 139 2.0 58 Breen et al. 1997 X95326 R: GCACCAATGTTTATAGACTCCC ASB25 microsatellite 19q21-q23 F: GGAAACATTGGTACAGAGGC 70-94 2.0 55 Breen et al. unpub.; X93539 R: TGAACCCAACTTCCTGCTCC Lear et al. 1999 COR044 microsatellite 19 F: CTGAGGCTCTCAGGAACAAG 152-190 2.0 58 Ruth et al. 1999 AF108361 R: GTTGATGGAAAGGCCTACAA COR062 microsatellite 19 F: GTCATCCAGTGACGAACACA 216-230 2.0 58 Tallmadge et al. 1999 AF142599 R: AGGAAGTGCGCAGTAGAGAA COR092 microsatellite 19 F: GGCAAGAGCCAGGTATTTTC 183-199 3.0 55 Tallmadge et al. 1999 AF154945 R: ACTGCTTGGACGAAACTGAG HMS08 microsatellite 19 F:GGTGAGGAATTATCTCTTTGAAGG 207-215 2.0 58 Guérin et al. 1994 X74637 R:GCAGGTAGGATTGGATAGGTACAT HTG23 microsatellite 19 F: GTCCTTCAGAGTTGTCCCTG 191-199 2.0 58 Lindgren 2000 R: GGAGAACAACCTTGCCTGAG HTG24 microsatellite 19 F: CTCAGGGCTAATCTTCCTCA 180 2.0 60 Lindgren 2000 R: TGTAAATTCTCCTATGGAAGCA I-12 microsatellite 19q12-q14 F: AACTAAGCACGTCATACAAG 155-175 3.0 58 Marti et al. 1998 Y10242, R: CTTGTAGTTTTCGTTGTATAGC Y10243 KNG kininogen 16q23.3??? 3q27 F: ACCTAAGGCCCTGCGAGTATGT 226 4.0 58 Fetal cDNA library R: EST#1110; Milenkovic 21 AGACAGAACTTTATTTCACCCAGCAA et al. 2002 LEX035 microsatellite 19 F: CCCAGCATATCAAAGATGTT 247-275 3.0 58 Coogle et al. 1997 AF075637 R: GCTCAGTGTACTTCAAGCAG LEX036 microsatellite 19 F: CCCAGCCTCTTCAATATCCA 190 3.0 58 Coogle et al. 1997 AF075638 R: CCCTAAGGGGATTTAGCAGTT LEX040 microsatellite 19 F: TTTGGCCGTTAGTCGTGT 130-136 4.0 50 Coogle et al. 1997 AF075642 R: GACAAATCGGAAAGTTGGAA LEX073 microsatellite 19 F: CCAGCCATCCACTGGTAGAG 218 2.0 58 Bailey et al. 1999 AF213359 R: GGGAAAAGGGGAACCTTCTA MPZ003 microsatellite 19 F: CCTAGAGTCCATCCTTGCATC 170 2.0 58 Breen et al. 1994 Z29484 R: TTGTGGGAGCTGTTTTCTTCTTGG NV011 microsatellite 19 F: GGCCCCACCCACTAAATATCACTG 118-128 2.0 58 Røed et al. 1997 AF011403 R:CGGGGTCTTGGAAATTTATGAAGG SST somatostatin 19 3q28 F: TTAGCCATTTCCCTGTCCTG 205 3.0 58 Caetano et al. 1999 AF130783 R: TCTTGGAATTCCCTTGAACG TKY004 microsatellite 19q21 F: TCTGTGTATGTGAGTGTATA 87 2.0 55 Hirota et al. 2001 AB048315 R: GATCGAGGTATTCCTGAGTG TKY009 microsatellite 19q23 F: CAGTGATTTTCCTCTCCTCC 103 2.0 58 Hirota et al. 2001 AB048320 R: AAAATGCTGACCTGTAGGCA TLOC1 translocation protein 1 19 3q26.2-q27 R. Brandon pers. comm. 379 2.0 55 Fetal cDNA library EST#140 ZNF- Zinc Finger Protein 19 3q13.11 F: GGAGATGCCACATTTCTCTCCTC 316 4.0 TD60 Fetal cDNA library U69274 R: AATTGTAGGTCAGCCACACAGCTAC EST#1124 ECA20Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT018 microsatellite 20 F: TTTTCCAGTGACTCTGAGTGTG 168-178 2.0 58 Swinburne et al. 1997 R: GTTGTGGGAAAACTAGTCTGGC AHT100 microsatellite 20 F: ATCGCCCTAATGCCAGTTC 119-129 2.0 58 Swinburne et al. 2003 AJ507717 R: CTCTTTGAAGTCCTCGGGC COL9A1 collagen, type IX, alpha 1 20q24 6q12-q14 F: TGGAAAATGCCTGCTTTCTA 200 2.0 58 Caetano et al. 1999, AF130755 R: TAATGCAGTTGATCCCACGA Godard et al. 1998 COR029 microsatellite 20 F: CTAGAAGGGTTTCCCAAAGG 222-228 3.0 58 Murphie et al. 1999 AF101398 R: TCGAGCTCCTGAAGAACATC COR050 microsatellite 20 F: TCTGTTGCCTTTATCCACAA 283-297 1.5 58 Ruth et al. 1999 AF108367 R: ATGAAAACCCTGGGAATAGC DMA ELA, class II, DM alpha 20 6p21.3 F: TTTGTCTCCGCGGTTGATGG 450 1.5 57 Newkirk, Skow, unpub. R: CCAAGCCAACAATGATGCCC DOB ELA, class II, DO beta chain 20 6p21.3 F: TTGTGATTCAGGCAAAGGCTG 175 1.5 55 Newkirk, Skow, unpub. precursor R: TGTTCCACTGCTCAGCATCTGG DQA ELA, class II, DQ alpha 1 20 6p21.3 F: CGACTCAGATGACCACATTG 260 1.5 57 Newkirk, Skow, unpub. AF115329, R: GGGGACACATACTGTTGGTAG U92522 EDN1 endothelin 1 20 6p24.1 F: TGCCAAGCAGGAAAAGAACT 209 2.0 58 Caetano et al. 1999 AF130760 R: TTCCAGCCTTTCTCCATAGTG HMS04 microsatellite 20 F: GCAAACAACTGTGCAATAGAT 106-112 3.0 58 X74633 R: AATTCATCCCAATTGGCTGG HMS42 microsatellite 20q24 F: TAGATTTCTTAAGTGCCAATAGTGG 135 2.0 65 Godard et al. 1998 R: GAACTGCTATAGATATACCTAACTC HTG05 microsatellite 20 F: TGCTAAGCCTCAGCACATACA 79-95 3.0 58 Ellegren et al. 1992 AF169166 R: TGGAAATAAGGTTAGCAGGGATGC ITPR3 inositol 1,4,5-triphosphate 20q21 (S) 6p21 F: CCGTGCTCAGATCTGCTGTAGA 246 1.5 60 Fetal cDNA library, G62183 receptor, type 3 R: GGCCAAAGGATGTGTAAAACTTTAC EST#540; Lear et al. 2001 LEX052 microsatellite 20 F: GGAACGGAAGAGTGTAGTTTT 196-225 2.0 58 Coogle & Bailey 1997 AF07565422 R: CATTTATTCATCAGCGATTTG LEX064 microsatellite 20 F: ACCCTTTCCGCAGACAA 197-209 2.0 58 Coogle & Bailey 1999 R: CACATCAGAGCCCATCTTCTC LEX071= microsatellite 20 F: CTTTATTCTACTCTTTGGTCC 185-204 3.0 55 Bailey et al. 2000 AF213358 LEX072 R: CCGATATTTCACTGATTATT MUT methylmalonyl Coenzyme 20q21 6p21 F: CCATTCAAGTGCTTGATGATAT 228 1.5 60 Fetal cDNA library, G62188 A mutase R: CATCACACTTATAACATGACAACA EST#556; Lear et al. 2001 NV005 microsatellite 20 F: GGCATGTGCTTCCCCTCAC 151-155 1.5 58 Røed et al. 1997 AF011401 R: CCTCTTTCCACGCAATCACTCTA NV021 microsatellite 20 F: CCAGAACCTGGACTGAACAGTGTC 151-161 2.0 58 Bjornstad et al. 2000 AJ245762 R: GAATGTGCTTGATGCAGAAGAAGG SGP28= specific granule protein (28 kDa) 20q22 6p12.2 F: CGCAATACAAAGTGGAGAAG 421 2.0 55 Lindgren et al 2001 AJ001400 CRISP3 R: AGGCCATAAGAGAAAGGTACA UM011 microsatellite 20 F: TGAAAGTAGAAAGGGATGTGG 150-180 3.0 58 Meyer et al. 1997 AF195130 R: TCTCAGAGCAGAAGTCCCTG UMNe56 microsatellite 20 F: TCTGTCTGCAGCTAAAGAGGC 193-201 2.0 58 Roberts et al. 2000 AF191692 R: GCGGGGTACATAAGACTGTAGC UMNe64 microsatellite 20 F: TTGCTTTTCTTCCTACACTCCC 145-147 2.0 58 Roberts et al. 2000 AF191697 R: TTGACCTAAAGCTCAATGTGTG UMNe65 microsatellite 20 F: TCCTTCCACTCCCCTCAAC 126-146 2.0 58 Roberts et al. 2000 AF191698 R: TCCCTGAAAAACCTTGGTTG UMNe67 microsatellite 20 F: TCCTTACCCCTTTGGAGATG 171-175 2.0 58 Roberts et al. 2000 AF191700 R: CAATGGTGTGCTCCATGAAG ECA21Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT078 microsatellite 21 F: CCTCTCGCAGAAGCACAAAT 191-195 2.0 58 Swinburne et al. 2003 AJ507695 R: GCTCCCTGCTGACTTCTGAG BASP1 brain abundant, membrane attached 21q18 5p15.1-p14 F: GGGTCCTGGATTTTAAAGATCAATG 302 3.0 58 Fetal cDNA library signal protein 1 R: TGGCATCGAGATACATGTGGATAG EST#400 C9 complement component 9 21q17 5p14-p12 F: GTTGCTCGTTGTGGGTTTCT 196 2.0 58 Caetano et al. 1999; Godard et AF115746 R: CGCAAATTTTCTCCCTCTTTC al. 2000 COR068 microsatellite 21 F: AACCAATTGTGAGATTTTTGCT 144-156 2.0 58 Tallmadge et al. 1999 AF142605 R: GGCTAGTCCTGGATCATGTG COR073 microsatellite 21 F: GCCAAGACATGGAAACAATC 180-198 2.0 58 Tallmadge et al. 1999 AF142610 R: GTTCTCAAGGTGCATCCCTA CTLA3= granzyme A 21q14-q15 5q11-q12 F: CTGGCCACCTACATGGAAAC 204 2.0 58 Caetano et al. 1999 AF115751 GZMA R: GGAGACGAAGGATAGCCACA FLJ14054 hypothetical protein FLJ14054 21 5p13.3 F:GGGAGAAATTTGAATCAGCAG 103 4.0 50 Testis cDNA library R: GCCCTTTATTCCTTGTGCATA #AM035_A08 GHR growth hormone receptor 21q16 5p13-p12 F: TTGGCCTCAACTGGACTCTA 114 2.0 58 Caetano et al. 1999 AF097588 R: CCAGGACTATCCACCCCTTC HMGCS1 3-hydroxy-3-methylglutaryl- 21 5p14-p13 F: ACTGGGCACGGATCTTTTT 147 2.0 65 Testis cDNA library Coenzyme A synthase 1 (soluble) R:GGACACATATGCAACATGCCT #AM007_G04 HTG10 microsatellite 21 F:CAATTCCCGCCCCACCCCCGGCA 93 1.5 TD60 Marklund et al. 1994 AF169294 R:TTTTTATTCTGATCTGTCACATTT HTG32 microsatellite 21 F: CCTGAAACCTCAGTAAACAGA 150-160 2.0 58 Lindgren 2000 R: TGTGGCTTTGGTGTGGAAAC IL7R interleukin 7 receptor 21q17 5p13 F:TGGAGTGAATGGAGTCCAAGT 150 2.0 58 Caetano et al. 1999 AF115754 R: TATAGCCACACCACCCTGGA LEX037 microsatellite 21 F: GGATTCCTCAACCTCCTAAA 189-197 3.0 58 Coogle et al. 1997 AF075639 R: AGGGATAAGTGACCACCAC LEX060 microsatellite 21 F: TTGCAGAAGGAGCCAATC 145-161 3.0 58 Coogle & Bailey 1997 AF07566723 R: AAGGCATTCGGAAATCTAAAT SG14 microsatellite 21q13 F: CCCCAGTGGTTCCATTTAGATGT 188 3.0 58 Godard et al. 1997 U90593 R: GGGGAGAGCATTTTGGTGA SG16 microsatellite 21q13 F: AATTCTCAAATGGTTCAGTGA 190 2.0 58 Godard et al. 1997 U90594 R: CTCCCTCCCTTCCTTCTA TKY021 microsatellite 21q13 F: AGGTGAACCCCAGAGAGTCC 117-132 2.0 58 Kakoi et al. 1999; Swinburne et AB048331 R: AGTGAGGCCTCGGTTGGGAG al. 2000 TKY280 microsatellite 21 F: GAGGAGACCAAAATAACAGG 309-321 3.0 58 Tozaki et al. 2000 AB033931 R: ACTCCCTGCTTTGCACTCTG ECA22Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ADA adenosine deaminase 22 20q13.12 F: AGGCAGGGTTAATGTGACCA 219 2.0 58 Caetano et al. 1999s AF135790 R: GGGAAAGCTTCAAGATGGTG AHCY S-adenosylhomocysteine 22 20q11.22 F: GGTTTAAGAGAATGCCCAGCTC 161 3.0 58 Testis cDNA library hydrolase R: TACCTGGCCTGTGGACTTGATA #AM003_H04 AHT030 microsatellite 22q13 F: TCACCGCTCACCTTTTGAC 181-183 2.0 58 Swinburne et al. 2000 AJ271515 R: CGTGCAGGTGTACATTTACATG AHT031 microsatellite 22q18-q19 F: TCTTGCTGCATTTCCTTGG 109-123 2.0 58 Swinburne et al. 2000 AJ271516 R: TGCAGGAAAAGTTTGATGACC AHT095 microsatellite 22 F: CATTCTCCAGGGATTAACATTG 217-233 2.0 58 Swinburne et al. 2003 AJ507712 R: ACCATAATGAGCTAAGGAAGCA ASIP agouti (mouse)-signaling 22q15-q16 20q11.22 F: GCAGCCAGGCTAATGAGAAC 198 2.0 58 Godard et al. 1998 AF179635 protein R: ACAAAAGGAGCAAAGCCAGA BMP2 bone morphogenetic 22? 20p12 F: AGAAGCGTCAAGCAAAGCAT 201 2.0 58 Shubitowski et al. 2001 AY008772 protein 2 R: TCTGAACAATGGCGTGGTTA COR001 microsatellite 22 F: GGCAGCATCCCACATAAAACAG 123-137 2.0 58 Hopman et al. 1999 AF083444 R:GCTCACTATTACCACGATGATTGATT C COR016 microsatellite 22 F: CAGCTCAGTAGATGATTGTCCA 177-196 2.0 58 Hopman et al. 1999 AF083459 R: GCAAAGACAAGGAGGTTAAGTT COR022 microsatellite 22 F: AAGACGTGATGGGAAATCAA 254-264 2.0 58 Murphie et al. 1999 AF101391 R: AGAAAGTTTTCAAATGTGCCA EDN3 endothelin 3 22 20q13.32 F: GTCCAAGTCCCAGAACCC 162 2.0 58 R: TGATCCAGATGATGTCCAG GNAS1 guanine nucleotide binding 22 20q13.2- F: AAGCAGGTTTAACGCACAGG 199 2.0 58 Caetano et al. 1999 AF134221 protein, alpha stimulating q13.3 R: GGCCCTGAACCTCTTCAA activity polypeptide1 HMS47 microsatellite 22q19 F: CCTGCTGAGGACCTTGGAAGCT 196 3.0 58 Godard et al. 1997, Godard et al. U89815 R: ATGTATTTTCAAGTCTAATATCTGCC 1998 HTG14 microsatellite 22 F: CCAGTCTAAGTTTGTTGGCTAGAA 141 2.0 58 Marklund et al. 1994 AF169298 R: CAAAGGTGAGTGATGGATGGAAGC HTG21 microsatellite 22 F: ATTACTTCCTCCAGGTATCTCAG 151 3.0 58 Lindgren et al. 1999 R: AGGCAGGGCTGGGAGACGT LEX002 microsatellite 22 F: AAAAGGAAGACTGGCGACAG 127-131 3.0 58 Coogle et al. 1996 AF075606 R: GGTGGGGGAAAGAATGGT RPN2 ribophorin II 22q17 20q12-q13.1 F: GCCCATTAGTTCCAGAAAAAGGAA 247 2.0 58 Fetal cDNA library R: AATATTCACAGCATCTTGCTAGGGC EST#1137 SG01 microsatellite 22 F: AGTCACCACCACTCACCTTGT 187 2.0 58 Godard et al. 1997 U90584 R: CCAACACAGGATACGGATGA SG19 microsatellite 22q19 F GCCCCCACCTGCTCCACC 143 2.0 58 Godard et al 1997 U90597 R: GGGGCAAAGTGGAAATCC TKY285 microsatellite 22 F: ACCAATGGTAAACATGGCAG 164-174 2.0 58 Tozaki et al. 2000 AB033936 R: CTGAAGAGGCAAGGAAAAGG24 UMNE77 microsatellite 22 F: CAATGGGGACTTCTCAGATAGC 135-143 2.0 58 Roberts et al. 2000 AF91707 R: AGGGAGGTTGAAGAGTTTACC ECA23Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT039 microsatellite 23q12 F: CCATTTTCTCATCACAAGCG 79-103 2.0 58 Swinburne et al. 2000 AJ271524 R: TGAATCCCTGCTGCTTCC ALDH1A1 aldehyde dehydrogenase 1 23 9q21 F: GGGCCATTAAGAGAAAGA 161 3.0 58 Testis cDNA library family, member A1 R: TATATGACCCCCAAGTCC #AM001_C07 ASB39 microsatellite 23q15 F: ACAGCTGCCTGGATATGTGG 156-172 2.0 58 Irvin et al. 1998; AF004769 R: GCAGAGAGAAATAGAGATGC Lear et al. 1999 COR055 microsatellite 23 F: TAGTGACGCCTACGGATTTC 230-258 2.0 58 Ruth et al. 1999 AF108372 R:CCCAAGAGGGCTTAGAAAGAG COR060 microsatellite 23 F: TCCTTCCTTCTCTGGGTCTT 200-226 2.0 58 Ruth et al. 1999 AF108377 R: AGCAGTATGTTCCAAGCGT COR084 microsatellite 23 F: GCTTCTGCTGAAAGCAATG 180-196 4.0 55 Tallmadge et al. 1999 AF154937 R: CAAACTGCATGAGTCAATTCC IFNA1 interferon, alpha 1 23q16-q17 9p22 F: GGGACGAGAGCCTCCTAGAC 193 2.0 58 Caetano et al. 1999; AF135017 R: CAGGCACAAGGGCTGTATTT Lear et al. 2001 IFNB1 interferon, beta 1, 23q17-q18 9p21 F: ACTTGCTTCGGTCCCAACTA 199 2.0 58 Himmler et al. 1986; AF134227; fibroblast R: GAAAATACGCCAGGTGTGCT Caetano et al. 1999; M14546 Lear et al. 2001 LEX053 microsatellite 23 F: TTGTGGAGCTGTGTCTGCAT 202 2.0 58 Coogle & Bailey 1997 AF075655 R:TTCAAATCCTAGCTCGTCCAA LEX063 microsatellite 23 F: CGGGGTGTGCATCTCTTAGG 241-249 2.0 58 Coogle & Bailey 1997 AF075663 R: TGGCGAATGCTGAATCTGG MTAP methylthioadenosine 23q18-q19 9p21 F: CCAATCTTTTTGGAGGGCAC 313 3.0 58 Fetal cDNA library phosphorylase R: EST#402 TTCTCATTTCATATTAGAGAGTTGCCA SG04 microsatellite 23q19 F: CGACGCCTCCTCCTAAAC 213 3.0 58 Godard et al. 1997 U90587 R: CAGCTGTGTGCCTTTGATTAT SIGMAR1= sigma receptor (SR31747 23q18-q19 9p12 F: CGTCCTCACCATATGCCTTAC 253 1.5 65 Fetal cDNA library G62162 SR-BP1 binding protein 1) R: TCTAGGCCAGGGCTGGTCTCC EST#972; Lear et al. 2001 SPIN spindlin 23q18-q19 9q22.1-q22.3 F: TGTGGACCCATCAGAAGACTGTTT 240 4.0 TD60 Fetal cDNA library R: EST#1121 ATGGAACACGAAGACCTCTGAACTAG TLE4 transducin-like enhancer of split 4, 23 9q21.31 F: CTGCTGGAAGATGCGATG ~700 3.0 58 Testis cDNA library homolog of Drosophila E(sp1) R: ATGACAGCGATGGTGAGAAG #AM001_D05 UM019 microsatellite 23 F: TACTGCCAGCACTTGTACC 134-180 2.0 58 Meyer et al. 1997 AF195136 R: TCTCTCAGTTTCTCTCTCTGTC UM022 microsatellite 23 F: AAATAGCCACCAGCACGCAC 125-140 3.0 58 Meyer et al. 1997 AF195138 R: GCAGCAAATCATCAACCCAG UM027 microsatellite 23 F: TGCAAGAATTGTGAGGGAC 235-239 1.5 56 George et al. 1998 AF195574 R: GTGCTCAGTTAGTGGTATTC UMNe51 microsatellite 23 F: TCTCTGCTCCAGATGGCC 158-160 2.0 58 Roberts et al. 2000 AF191689 R: AACTTTCTCATCCCCAACCC UMNe69 microsatellite 23 F:CCTCTTAAGGATGCTCACAGTG 122-130 2.0 58 Roberts et al. 2000 AF191702 R: TGCATGGGTGTATGGGTATG ECA24Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) 25 AHT004= microsatellite 24q14 F: AACCGCCTGAGCAAGGAAGT 190 2.0 58 Binns et al. 1995; Y07733 HMB4 R: CCCAGAGAGTTTACCCT Godard et al. 1998 AHT032 microsatellite 24q14d-q15 F: CCAAGTCCTGCTTCCATGAT 138-142 2.0 58 Swinburne et al. 2000 AJ271517 R: CCTGTCTGGGTCAGAGGATG CALM1 calmodulin 1 (phosphorylase kinase, 24 14q24-q31 F: TTGAGCACAGTCAGGCATTTTGT 149 2.0 58 Fetal cDNA library delta) R: EST#298 CCTGAGGTAAACCAATTTTAAATGTGT COR024 microsatellite 24 F: CAAAAGTGATTGCCTTCGAT 201-213 2.0 58 Murphie et al. 1999 AF101393 R: TTGGAAGCTGGGTGATTG COR025 microsatellite 24 F: ACAGAGCTGACTGCCTATGG 172-176 2.0 58 Murphie et al. 1999 AF101394 R: TCCTCTTCTCAGGGAGACCT COR061 microsatellite 24 F: TTAAGAGTGGCAGACCGACT 188-210 2.0 58 Tallmadge et al. 1999 AF142598 R: GAACGCTTCTTAAGTGGCAGA COR087 microsatellite 24 F: CCTAATCATCAATGGCTAACTG 181 2.0 58 Tallmadge et al. 1999 AF154940 R: CAATCTGTCCATAACTGGCAC EA2C4 microsatellite 24 F: CAAAGCTGTGCTCTGGGTTT 253 3.0 58 Gralak et al. 1994 Z29341 R: AGCAGGAGGAATGGCAGTTA FLRT2 fibronectin leucine rich 24q15-q16.1 14q24-q32 R. Brandon pers. comm. 346 3.0 58 Fetal cDNA library transmembrane protein 2 EST#384 HIF1A hypoxia-inducible factor 1, 24 14q21-q24 F: CCTAAATGTCCTGCCCACCCT 290 2.0 58 Fetal cDNA library G62202 alpha subunit R: TCCAACCACAAAGAGCAAAAGG EST#828 LEX032 microsatellite 24 F: CGTAGTAGGGTTTTGGGTCC 254-267 3.0 58 Coogle et al. 1996 AF075634 R:TTGCGTTTCAATTTTTAATGAC LEX042 microsatellite 24 F: ACATACAAACCTGCTCAACAT 217-227 3.0 58 Coogle et al. 1997 AF075644 R: CCTACACATCGCTCATCAA LEX074 microsatellite 24 F: AAGAGTGCTCCCGTGTG 148-168 2.0 58 Bailey et al. 2000 AF212260 R: GACAATGCAGAACTGGGTAA NUMB numb homolog (Drosophila) 24 14q24.3 F: GATCCCGTCTGCAACTT 365 3.0 58 Testis cDNA library R: GGTGGCCTGTCTTAGAGA #AM005_D03 SERPINA1 serine (or cysteine) proteinase 24q15-q16 14q32.1 F: CAACACTCACACTGAGATCCTG 200 2.0 58 Godard et al. 1998; AF034077 =PI=AAT7 inhibitor, clade A R: TCAGCATCCCTGAAGTTGATGG Lear et al. 1999 TKY36 microsatellite 24q14 F: TGGCTTTCCTGCTGACTCAT 183 2.0 58 Hirota et al. 2001 AB048342 R: TGCTGGGAGGGCTCCCTTTC TKY37 microsatellite 24q14 F: CTCAGGGCCAACAATCCTG 151 2.0 58 Hirota et al. 2001 AB048343 R: TCGGTTGTTTCTGAAACTGC UCD467 microsatellite 24 F: CCCCGCAGCCAGCCTGTT 88-108 2.0 58 Eggleston-Stott et al. 1997 U67415 R: TTGTTCCCAGTGTAGGCACTCT UM012 microsatellite 24 F: GGAATTTAGACTATGACTGAGG 100-110 3.0 58 Meyer et al. 1997 AF195131 R: GCCACCTGAACACTTTTAC ECA25Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ABL1 v-abl Abelson murine leukemia viral 25 9q34.1 F: GCAGCCTCTTCCTGTTTCAG 202 1.5 60 Shubitowski et al. 2001 AY008765 oncogene homolog 1 R: ACTCCCGACTGAACGAACAC AHT007 microsatellite 25 F: CCTTAGATCCGAGAAGGAGA 121-133 2.0 58 Swinburne et al. 2000 R: GAAGCCTCACTCCATCCAGG AHT051 microsatellite 25 F: ACCTACACACCACTCGTCAAG 146-181 2.0 58 Swinburne et al. 2003 AJ507668 R: TGCCTTATATTCCTTGTGTGTG COR018 microsatellite 25 F: AGTCTGGCAATATTGAGGATGT 249-271 2.0 58 Hopman et al. 1999 AF083461 R: AGCAGCTACCCTTTGAATACTG COR080 microsatellite 25 F: CGTGCTGCCAGAGGTAAATA 198-206 2.0 58 Tallmadge et al. 1999 AF142617 R: ACTGAGATGAGGTTTGCTGC HSPA5= heat shock 70kD protein 5 25 9q33-q34.1 F: TGAGAACACGGTCTTTGACG 195 2.0 TD60 Caetano et al. 1999 AF134222 GRP78 R: TGTTGCTCAACGTTTTCCAG26 NV043 microsatellite 25 F:TGACACAAGATAAAAGCCCCAGG 135-159 2.0 58 Roed et al. 1998 AF056396 R: GATTGGGAAAAGAGCACAGCC TXN thioredoxin 25 9q31 F: TGGTGGCTTCAAGTTTTTCC 187 2.0 58 Caetano et al. 1999 AF134237 R: GCCCCCAAGGATGTTAATTT UCD405 microsatellite 25 F: ACCTCGTCTGGCTGTTGTAAG 256-274 2.0 58 Eggleston-Stott et al. 1997 AF000010 R: ACTTGCTGTGCGACTCTG UCD464 microsatellite 25q18-q19 F: ATGCTCTGAGAATAAGTCTGG 94-106 3.0 TD60 Eggleston-Stott et al. 1999; U67413 R: AAAAGGCGAGAATGGAAT Lindgren et al. 2001 ECA26Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) A-17 microsatellite 26q13-q14 F:GTGGAGAGATAAAAGAAGATCC 95-111 3.0 58 Marti et al. 1998 X94446 R: GGCCACAAGGAATGAACACAC COR071 microsatellite 26 F: CTTGGGCTACAACAGGGAATA 178-200 2.0 58 Tallmadge et al. 1999 AF142608 R: CTGCTATTTCAAACACTTGGA COR099 microsatellite 26 F: GAAAAGAAATTCCCAGGTCC 158-160 3.0 50 Tallmadge et al. 1999 AF154952 R: CCTTGGAAAACAATGACTGG DSCR1 Down syndrome 26q15 21q22.12 F: GTCCTTTGGAAATACCTAATGCCG 206 3.0 58 Fetal cDNA library, critical region gene 1 R: ACGTCACTAGGAACACTTGACAGCT EST#845 EB2E8 microsatellite 26q15 F: GGGGTTGTGGAGAATGTCTG 197 3.0 58 Gralak et al. 1994; Z29340 R: CCACAGGTTTTCATGGGTCT Lindgren et al. 2001 LEX044 microsatellite 26q13-q15 F: TTGGGCTTCTTATCTTGTTAC 191-205 3.0 58 Coogle et al. 1997; AF075646 R: GGCCATATGATTTGCTTT Lindgren et al. 2001 NV070 microsatellite 26 F:GCTGGTCAAGTCACACTGTG 189-203 2.0 58 Roed et al. 2000 AJ245765 R:AACCTCACCCCAAGTTGTAT TKY275 microsatellite 26 F: TCTCAGTGGATATAACTAGC 144-154 3.0 50 Tozaki et al. 2000 AB033926 R: GAGATGGATACAGATAGAAG ECA27Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT082 microsatellite 27 F: TGCCTATTGTTTGAGGAGGG 203-209 2.0 58 Swinburne et al. 2003 AJ507699 R: GCCAGTACAAATTGGGCAGT ASB38 microsatellite 27 F: TGGGGTTGCCTTGGTTACC 111-119 2.0 58 Irvin et al. 1998; AF004768 R: TCAGAGGATGAGGCACAGC Lear et al. 1999 COR017 microsatellite 27 F: GAAGGCCTGAAGCATTTACA 235-253 2.0 58 Hopman et al. 1999 AF083460 R: CGTAATGTTGACCAAACTTCA COR040 microsatellite 27 F: GTGTTGGGACACGAATGAAT 275-289 2.0 58 Murphie et al. 1999 AF101409 R: AGGCTGTCTCCAGAGTCCTT F11 coagulation 27 4q35 F:CGTCCCTGGTAACGAATGAG 192 2.0 TD60 Shubitowski et al. AY008784 factor XI R: CTTCGCTGCCCTTTCATATC 2001 HMS45 microsatellite 27q16 F: TGGTAAACTGTGCATGATTGG 215 3.0 58 Godard et al. 1997; U89813 R: AAAGGAAGATTGGCAAACCA Lindgren et al. 2001 LEX005 microsatellite 27q16 F:AAGGCAATGCTTATCAAATGC 245-265 3.0 58 Coogle et al. 1996; AF075609 R: TTACCCGCAGTGACTTCTATT Lindgren et al. 2001 UCD005 microsatellite 27 F: AGCGGAAGTGCTGCGAAAG 236-238 2.0 58 Eggleston-Stott et al. U35423 R: CCAGCATCTCTGGGCAGG 1996 ECA2827 Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) ARSA arylsulfatase A 28 22q13.33 F: AGGCTACCTCACAGGAATGG 210 2.0 58 Caetano et al. 1999 AF130747 R: GCTCCACTCAGGTGTCTGGT CYP2D cytochrome P450, 28q18 22q13.1 F: ATGACATCCCGTGACATTGA 200 2.0 58 Caetano et al. 1999; AF130756 subfamily IID cluster R: CTACTGCATTCCCACATCCA Mariat et al. 2001 HTG30 microsatellite 28 F: TCAAGGCAAATCTTTCCCAG 242 2.0 58 Lindgren 2000 R: GTAAAATAACAAGTTGTTCCAG IGF1 insulin-like growth 28q15 12q22-q23 F: ATTGCTAGCCAGCTGGTGTT 107 2.0 58 Caetano et al. 1998; U83589 factor 1 R: TGCATAACCTGAACCTGTGTG Milenkovic et al. 2002 UCD425 microsatellite 28q18 F: AGCTGCCTCGTTAATTCA 230-250 2.0 58 Eggleston-Stott et al. 1997; U67406 R: CTCATGTCCGCTTGTCTC Lindgren et al. 2001 UM003 microsatellite 28 F: GGAGGGACGATAGAGAGTAAG 135-160 3.0 58 Meyer et al. 1997 AF195125 R: GCAGAGATAACGGACATGG ECA29Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AKR1C3 aldo-keto reductase 29q16 (S) 10p15-p14 F: GTCCTGTGTGCAGATAGTGTGGC 173 3.0 58 Fetal cDNA library G62200 family 1, R: GATTCACATAGGAAAGAGATTTGGG EST# 759 member C3 ASB43 microsatellite 29q16 F: CCCGGGGGATCACTTAGTAG 101 3.0 TD60 Irvin et al. 1998; AF004773 R: TCCTTGACTCTCCACTCATCC Lear et al. 1999 COR021 microsatellite 29 F: CTGTAGCCAGCCCTGACAGT 202 2.0 58 Murphie et al. 1999 AF101390 R: GATGGTGGGGTATTTGTCCA COR027 microsatellite 29 F: CAGCTCTGCAATTTCTCCTC 219-243 5.0 TD60 Murphie et al. 1999 AF101396 R: AATGACCAAGGCATTGAAAG COR082 microsatellite 29 F: GCTTTTGTTTCTCAATCCTAGC 196-226 2.0 58 Tallmadge et al. 1999 AF154935 R: TGAAGTCAAATCCCTGCTTC LEX018 microsatellite 29 F: TTTCATCACTTTCTGCTTCC 228-242 3.0 58 Coogle et al. 1996 AF075620 R: TTCTCTTCCTTTGCTCATCCT LOC91452/ similar to membrane- 29 10p12.1 F: CCGACTGCTTGTAATGAATC 248 3.0 58 Testis cDNA library DKFZp- associated R: TGTGTCTGTCTAAAGGGATCT # AM001_B03 434A2417 diazepam binding inhibitor; MA-DBI TKY112= microsatellite 29 F: GCCTGTCAACAGATGAATGG 89-107 2.0 58 Mashima et al. 2001 AB053347 RC12 R: TTCATGGCTACGTAGTATTCC TXNL2= thioredoxin-like 2 29 6p25.3 F: TGGTGCCCAACTATTGCAAGAG 200 3.0 58 Fetal cDNA library PICOT R: EST#1112 GTTTATTGCATTGTATTTTTGGTGGAA VIAS-H39 microsatellite 29 F:AATGTGATTATAGCAGATAGGGTT 154-158 5.0 TD60 Ewen & Matthews 1994 L34845 R:CTATCCAATCTTCACAATCATGTA VIM vimentin 29 10p13 F: TTCATGCCTCCAGTTCACA 197 2.0 58 Caetano et al. 1999 AF135018 R: TTTGGAAGACAGCTCGAACA ECA30Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT023 microsatellite 30q15 F: TGCTGACATCTGCTATTGTGC 197-207 2.0 58 Swinburne et al. 1997 R: CTCATCATTTTTAAGGGCAAG AHT062 microsatellite 30 F: AGAATGTTGGGAGCACATAAGG 285-287 2.0 58 Swinburne et al. 2003 AJ507679 28 R: TCCATGACACAATCTCTGCC HMS18 microsatellite 30 F: CAACAATGAAAATTTGTCCTGTGC 170 3.0 58 Godard et al. 1997 U89807 R: GTAAATGAGTAGACAATCATGAGG HNRPU heterogeneous nuclear 30 1q43 F: CTGACAATAACTGGGAAGGC 132 3.0 58 Testis cDNA library ribonucleoprotein U R: CCTCCACAAATAATGCAACC # AM002_H02 HTG27 microsatellite 30 F: ATATGTCATATTTGAACAAGTCG 150 3.0 58 Lindgren 2000 R: GCACTGAAATCGAACATCTAA LEX025 microsatellite 30 F: CAATCGTGGCCCGGTAAC 139-156 2.0 58 Coogle et al. 1996 AF075627 R: TTCACTCCAATCCTCAGTCA LEX075 microsatellite 30 F: TCTGAAAAGTTGCAGTTTGAGAA 219 2.0 58 Bailey et al. unpub. AF213361 R: TACAGTGTATTGGGGGCACA UCD455 microsatellite 30 F: CCCCTTCACACTCCTCTC 154-166 2.0 58 Eggleston-Stott et al. 1999 U67411 R: CAGCAAGTGGGGAATCTA UMNe78 microsatellite 30 F: CCTATTGCAAATGATTCACACC 134-152 2.0 58 Roberts et al. 2000 AF191708 R: AGAGATTTCAGGGAAACATTCC VHL20 microsatellite 30 F: CAAGTCCTCTTACTTGAAGACTAG 89-107 4.0 TD64 van Haeringen et al. 1994 X75970 R: AACTCAGGGAGAATCTTCCTCAG ECA31Marker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT33 microsatellite 31q15-q16 F: CTGAGGGCGTAAGTCGAGTC 149-169 3.0 TD60 Swinburne et al. 2000 AJ271518 R: GTTAATAGGAGCGGTTGTTTGG AHT34 microsatellite 31q16 F: CTCAGGGCGAATGTTCCTC 121-142 3.0 58 Swinburne et al. 2000 AJ271519 R: CCCCACCATGAGTCAAAAAC COR038 microsatellite 31 F: GCTGGAAAAGAGCAGTTTCA 202-208 2.0 58 Murphie et al. 1999 AF101407 R: TGACATTAACTCCCGCATCT PCMT1 protein-L-isoaspartate 31 6q24-q25 F: CAGTGGTCCAGGGACGAACTG 228 3.0 58 Fetal cDNA library G62181 (D-aspartate) O-methyltransferase R: TCCTTTGCATCCCTCCTCTACC EST#530 PLG plasminogen 31q12-q14 6q26 F: GTGCCTCGAGTCCCAGATAG 203 2.0 58 Lear et al. 2000 AF097581 R: CCTTGGGGTTTCTCTTAGGC TKY105= microsatellite 31 F: TCGGGACAGGAAAGGAAGCT 196-204 1.5 50 Mashima et al. 2001 AB053344 RC08 R:GGTATCCAGAATGAAAGACCCC TKY274 microsatellite 31 F: CATTCTGGAATTGAAACCTC 112-132 2.0 58 Tozaki et al. 2000 AB033925 R: GGGAGTTCTGTTCTGAATGG TKY278 microsatellite 31 F: CTAGGGAATACAGAGAGAGC 104-132 2.0 58 Tozaki et al. 2000 AB033929 R: GCCACTCCGGTAACAAAATC VIAS-H21 microsatellite 31q14-q15 F: AAATGATAACGCCAAGTGCTCT 247-249 2.0 58 Ewen and Matthews, unpub,; L10926 R: ATGTGAGTGCCAGCTTGTGAT Swinburne et al. 2000, Lindgren et al. 2001 VIP vasoactive intestinal peptide 31 6q26-q27 F: 200 2.0 58 Fetal cDNA library TGTGTAAAATGTAAACTGAATGGAACG EST#1134 R: GCAATGATAATCAAACGTCTTTATTTTC ECAXMarker Marker type or full name Location Primers 5’ – 3’ PCR MgC2 Ta References Accession name/ product (mM) number symbol Horse Human size (bp) AHT079 microsatellite X F: AATTCGTTCCAGCTTTGGC 157-159 2.0 58 Swinburne et al. 2003 AJ507696 R: CCAGGGCAGAGAGAATCTTG AHT087 microsatellite X F: AGCCTCCATAACTGTGTGAGC 211-225 2.0 58 Swinburne et al. 2003 AJ507704 R: CTTAACCACTCTTGGGCTTCA AHT099 microsatellite X F: TTCTTGGGCAGGGGATTT 167-171 2.0 58 Swinburne et al. 2003 AJ507716 29 R: GGGGTGAGTTGGCTGTATTC ALAS2 Delta-aminolevulineate Xp14 XP11.22 F: GGCTACGCATGAACCAATCT 195 2.0 58 Shiue et al. 2000; Milenkovic AF133200 synthase 2 R: GTTAGGCCAGCTCATTCTGC et al. 2002 ALDH2ps Aldehyde dehydrogenase Xp13 F: TTGCCATTATCCAGGGTCTC 202 2.0 58 Shiue et al. 2000, AF133203 pseudogene R: GGGAGGTCATCTGTTGGGTA Raudsepp et al. 2002 ARSC1= Steroid sulfatase Xp25 Xp22.32 F: CTCTTGCAGGGTCTTGGTGT 200 2.0 TD60 Shiue et al. 2000; AF133204 STS-X R: GCACCAATGGATGTTTTTCC Raudsepp et al. 2002 BGN Biglycan X Xq28 F: CACTGTTCTCCAGGGGATTC 226 2.0 58 Shiue et al. 2000 AF135019 R: GGGGGCTAGTGGTCTTGAAC UCD428 microsatellite X F: CTTTTCCCCGAACCTCCTAC 125-137 3.0 58 Swinburne et al. 2000 U67407 R: TTGGATGCTCCGAGAAGAGT UCD502 microsatellite Xp F: CCTTGGGCTTTAGCAACT 155-167 3.0 58 Eggleston-Stott et al. 1997 U67420 R: CCATTGGAAACTGAGAGG CLCN4 Cloride channel Xp23-p24 Xp22.3 F: CATCCTGCTTGGGGTCTTT 192 2.0 58 Shiue et al. 2000; AF133199 R: GAAATGAGCTCGCTTGTGCT Raudsepp et al. 2002 COL4A5 collagen, type IV, alpha 5 X Xq22 F: CTCTTACCACTTAGATGCCCCC 322 3.0 58 Fetal cDNA library G62201 R: GCATCAAGTGAGAAGATGACAGC EST#774 COR074 microsatellite Xp23-p24 F: GAAAAGCGTATCTTCTCTTAGTC 281-291 2.0 58 Tallmadge et al. 1999; AF142611 R. GGGCGATTCATCAGAATCTA Raudsepp et al. 2002 COR091 microsatellite X F: GGTGATTCAAGGTTAATGGC 205 2.0 58 Tallmadge et al. 1999 AF154944 R: TGTATCTGTCCACAGCATGG CRSP2= cofactor required for Sp1 Xp14 Xp11.2- F:TTTCATCAAAAAGACCATCAGTCTTT 300 2.0 58 Fetal cDNA library AF135802 TRAP170 transcriptional activation p11.4 R:TTGCTTCCTTGGGATGAGTTTATAAC EST#121 CXorf6= f18 gene; chromosome X Xq29 Xq28 F: TCATGGTATCCTGCATGTCG 200 2.0 58 Tozaki et al. 1998 AB009590 F18 open reading frame 6 R: CAGGTTGGCAAGAATGGAGT FACL4 fatty-acid-Coenzyme A X Xq22.3-q23 F: CATCGGGATGAAATTCTC 162 3.0 58 Testis cDNA library # ligase, long-chain 4 R: TTCATGACAAGCCAAACC AM006_G09 G6PD glucose-6-phosphate Xq Xq28 F: CCAGAATCTCATGGTGCTGA 199 2.0 65 Shiue et al. 2000 AF133202 dehydrogenase R: GATGACACAGGCGATGTTGT GPC3 glypican 3 Xq27 Xq26.1 F: CTGACTTCCTAGTGCCCAGCTC 273 2.0 58 Fetal cDNA library, G62152 R: CCATGTTCTAGAAGCCAAACATAG EST#829; Lear et al. 2001 HPRT1 hypoxanthine phospho- X Xq26.1 F: AGTGATTGCTTTTTGTCAGTCA 112 2.0 58 Shubitowski et al. 2001 AY008794 ribosyltransferase 1 R: TACTTGCAAATGGGCCTTCT IGSF1 immunoglobulin Xq27 Xq25 F: CCCTCATCAATCTCCAGGCAAC ca300 2.0 58 Fetal cDNA library, NM_001555 superfamily, member 1 R: GTACAGTGAGGAGTTACAGGGGCA EST#1133; T. Lear pers. comm. LEX003 microsatellite Xq F: ACATCTAACCAGTGCTGAGACT 143-164 3.0 58 Coogle et al. 1996 AF075607 R: GAAGGAAAAAAAGGAGGAAGAC LEX010 microsatellite Xp F: TGGGCTAAAATTTAATTTGGG 198-206 2.0 TD60 Coogle et al. 1996a AF075613 R: ACCAAAACATATGCAAATTAA LEX013 microsatellite Xq F: TGCTAGAGGAAGGGATAAAGG 122-128 2.0 58 Coogle et al. 1996a AF07615 R: CTCTGCTCTTCCATTTCTTGC LEX022 microsatellite Xq F: AACATATCCATCGCCTCACA 101-113 2.0 TD60 Coogle et al. 1996b AF075624 R: TGCAAATTCACTGAGAGTGG LEX024 = microsatellite Xq F: GGGGGTAGAGGGAAAAAGAG 131-150 2.0 58 Coogle et al. 1996b AF07626 UM001 R: TTGTTGGCAGATCCCAGG LEX026 microsatellite Xp F: CAGAGTGAATGGCAAATCC 231-243 2.0 58 Coogle et al. 1996c AF075628 R: CAGCCCTCCAAAGAGTTTAC LEX027 microsatellite Xp F: ACCACTGGGAAACTGTGTAA 187-200 2.0 58 Coogle et al. 1996c AF075629 R: GCCCAGAATCCGAACC LEX028 microsatellite Xp F: AACTGGGGATCACAACACAT 268-281 2.0 58 Coogle et al. 1996c AF075630 R: TTGGTACAGGAGCGTCTCTT MAGE- MAGE-E1 protein X Xp11.22 F: GTTCGTCGTATTCTCGGATGAC 500 2.0 58 Testis cDNA library EST# E1 R: AGGTACCCTCAAGGCACGTACT AM001_G06 MNK= ATPase, Cu++ transporting, alpha X Xq13.2- F: AAAGGCAGGTGTGAAATCCA 100 2.0 58 Shubitowski et al. 2001 AY008795 ATP7A polypeptide q13.3 R: TGCTTTTCTCAAAGTTTCTGGAG NV075 microsatellite X F: ATAACCCTGCTTACCCCTCTGT 98-112 2.0 58 Bjornstad et al. 2000 AJ245766 R: CAGGTGACATATCCCAAGGTGTA 30 OTC ornithine carbamoyl- Xp15-p16 Xp21.1 F: TCAGATCTGCTGATAGCCA Ca200 2.0 58 Godard et al. 2000 transferase R: GTGTGGACAACCACTACAAA PAK3 p21 activated kinase 3 X (S) Xq22.3-q23 F: TACTCCCTCGGATTATGTAATTTC 238 2.0 58 Fetal cDNA library G62153 R: GGAGGTTCGAATGCAAGAGGA EST#841 PGK1 phosphoglycerate kinase Xq13-q14 Xq14 F:AGTAATGCTGTCTGTGTGTGTGCTC Ca300 2.0 58 Fetal cDNA library, M11968 R: CCTAAGAAATGCAAATGGGATCC EST#409; Milenkovic et al. 2002 RBM3 RNA binding motif X Xp11.2 F:ACCTTTTAGAAAGCTCCATGTGTTTT 300 2.0 58 Fetal cDNA library NM_016809 protein 3 R: ACCAGGGCAGTGATCTTGAGTAA EST#120 SG31= microsatellite Xq13-q14 F: GACAGAACAGAAGAAGACCGG 143 3.0 58 Godard et al. 1997; U90606 UM038 R: CTTTCAATATGGCTCGCTCCTAC 113-137 2.0 58 George et al. 1998; AF195583 F: CAAGACAGAACAGAAGAAGAC Raudsepp et al. 2002 R: ATATGGCTCGCTCCTAC TKY020 microsatellite Xq29 F: ACAGTGCTCCCTGCTCCGGA 149 4.0 58 Hirota et al. 2001 AB009590 R: TCATGCTCAGAGTTTTGGGTG TKY038 microsatellite Xq23 F: TAAGTATTCTCATAAACGGG 134 2.0 55 Hirota et al. 2001 AB048344 R: GGAATAATAACAGCATCCTC TKY039 microsatellite Xp21 F: AAGCAGGGATAGTAAAGGAC 236 2.0 TD60 Hirota et al. 2001 AB048345 R: TCTTCCTACCCTTTTTTGGA UMNe58 microsatellite X F: GATCCAAGACTTGAAGGTTAGC 143-165 2.0 58 Roberts et al. 2000 AF191693 R: TTTCCTCACCATCCTCCTTGAC UMNe60 microsatellite X F: TGTGGCAGGAAAAACACATG 146-154 Roberts et al. 2000 AF91694 R: CCATAATCCATGAGCCTATTCC Minnesota typing VHL81 microsatellite Xq24-q26 F: CAACTATGTACTTTGGGGAGCT 162-174 2.0 58 van Haeringen et al. Y08443 R: GTCCATGAAATTCTAGTTGTTGC 1998; Raudsepp et al. 2002 XIST Xist gene Xq13 Xq13.2 F: ACCCATTGAAAACCCATTGA 200 2.0 TD60 Shiue et al. 2000 U50911 R: GGGGGTGGAGGAAGTAGAAG31

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