Detailed Information on Individual Markers Typed in the Equine Whole-Genome RH Panel
| Marker name/symbol | Marker type or full name | Location | Primers 5′-3′ | PCR product size (bp) | MgCl2 (mM) | Ta | References | Accession number | |||||||||
| horse | human | ||||||||||||||||
| ICA16 | microsatellite | 1q | F: TCACTGGGGGGTATATGCAT | 121 | 3.0 | 58 | AF043200 | ||||||||||
| R: GATCCTACTCCACCTGAAGTGG | |||||||||||||||||
| ICA20 | microsatellite | 1q13 | F: TGGACAAAATGCAAAAGTCA | 194 | 1.5 | 50 | AF043202 | ||||||||||
| R: TCCACTACACAGGAAAACGAA | |||||||||||||||||
| ICA22 | microsatellite | 1 | F: TGGGCAAGAGGACAAATAGC | 208 | 3.0 | 58 | AF043204 | ||||||||||
| R: TGGCAGCCTTGGTTTGTACT | |||||||||||||||||
| ICA24 | microsatellite | 1 | F: AGATATTGGGGGCGGAAG | 205 | 3.0 | 58 | AF179211 | ||||||||||
| R: TGGAGGTCAACTGGCTATCTC | |||||||||||||||||
| ICA25 | microsatellite | 1q17.3 | F: TCCAATTTTCCCCAATGGTA | 206 | 3.0 | 58 | AF043205 | ||||||||||
| R: CTGCATTTTGACAATGGTGG | |||||||||||||||||
| ICA28 | microsatellite | 1 | F: CCTACGCCCACACTCACATA | 213 | 1.5 | 58 | AF043208 | ||||||||||
| R: TGGACTTTCTTACCCCCAAA | |||||||||||||||||
| ICA30 | microsatellite | 1p16 | F: TGGGGAGGGGTTGTTCTAG | 130 | 3.0 | 58 | AF043209 | ||||||||||
| R: GCTCTCCACTGCATGCATAA | |||||||||||||||||
| ICA32 | microsatellite | 1 | F: AGTTACCAAATGTCGCATTGC | 107 | 1.5 | 58 | AF043210 | ||||||||||
| R: TTCATCTGTAAAATGGGCAGG | |||||||||||||||||
| ICA40 | microsatellite | 1 | F: TTGAAAGCCGTGTTTTTGTG | 226 | 1.5 | 58 | AF043213 | ||||||||||
| R: ACCCCATGTTCTGACAAGGA | |||||||||||||||||
| ICA41 | microsatellite | 1q15– q16 | F: CTGGTCAGGCCTATTACCCA R: AGATATTGGGGGCGGAAG | 245 | 1.5 | 58 | AF043214 | ||||||||||
| ICA43 | microsatellite | 1q17.1– q17.3 | F: ATGGCATGATTTGCTTCTCC R: TGGAAACAACCTAAATGTCCA | 122 | 1.5 | 58 | AF043215 | ||||||||||
| ICA44 | microsatellite | 1p16 | F: GGCAGCACACCAAATCAAGT | 203 | 2.0 | 58 | AF043216 | ||||||||||
| R: TCCTGCAAAACAACAGAGGA | |||||||||||||||||
| AHT021 | microsatellite | 1q14– | F: TCCAAGTTGCTGAATGGATC | 199–215 | 2.0 | 58 | Swinburne | ||||||||||
| q15 | R: ACGGCCTGATTCTCTCTTTG | et al. 1997 | |||||||||||||||
| AHT040 | microsatellite | 1q15– | F: GCAAGTTCAGCACCTCCCT | 230 | 2.0 | 58 | Swinburne et | AJ271525 | |||||||||
| q16 | R: TTTATGACACCTGCTGAGAACG | al. 2000a | |||||||||||||||
| AHT058 | microsatellite | 1 | F: CAGTGATGAGCCGCAAATAG | 163–198 | 2.0 | 58 | Swinburne | AJ507675 | |||||||||
| R: TCTACCTATAATCCGCCTCCC | et al. 2003 | ||||||||||||||||
| ANXA2 | annexin A2 | 1q21.3– | 15q21– | F: GTGGGGATGACTGAAGCCTGT | 234 | 3.0 | 58 | Fetal cDNA | G62155 | ||||||||
| q22 | q22 | R: CACTGCCAACTCCTTGGAATGT | library EST#912 | ||||||||||||||
| ANXA7 | annexin A7 | 1 | 10q21.1– | F: GCCGTCCTCACAGTCTTAT | 856 | 3.0 | 58 | Testis cDNA | |||||||||
| q21.2 | R: GAGCTTGACCTCCAGGATA | library #AM004_F05 | |||||||||||||||
| ASB08 | microsatellite | 1q16– | F: GACAACGTGGCAGCTCACTGCC | 143 | 3.0 | TD64 | Breen et al. | X95323 | |||||||||
| q17 | R: GCAAGTAAGCCATATGTGCATGCG | 1997 | |||||||||||||||
| ASB12 | microsatellite | 1q12– | F: TCAGCAATAGAAGCCAGCTCC | 170 | 3.0 | 65 | Breen et al. | X95327 | |||||||||
| q13 | R: TCCTATGGAGGTGACCTTCCC | 1997 | |||||||||||||||
| ASB41 | microsatellite | 1p14 | F: AAAGTTCACTTAGTCCTTGG | 129–159 | 3.0 | TD64 | Irvin et al. | AF004771 | |||||||||
| R: CCACCTGTTTGCACTTGC | 1998, Lear et al. 1999 | ||||||||||||||||
| CMA1= | chymase − | 1q | 14q11.2 | F: GAATTGCTCCTCTGCAGGTC | 200 | 1.5 | TD60 | Caetano et | AF130752 | ||||||||
| CHY | mast cell | R: CCTGTAGGTCCCACCTCTGA | al. 1999a | ||||||||||||||
| COR006 | microsatellite | 1q25 | F: GTTCTGCACATCCTGCTCTT | 187–199 | 3.0 | 58 | Hopman et | AF083449 | |||||||||
| R: AGTGCCCTGAAACTGTATGG | al. 1999 | ||||||||||||||||
| COR046 | microsatellite | 1q17.1 | F: TGTTTGCAAAGATATTGGGG | 245–259 | 1.5 | 55 | Ruth et al. | AF108363 | |||||||||
| R: ACCTGGTCAGGCCTATTACC | 1999 | ||||||||||||||||
| COR053 | microsatellite | 1 | F: AATTGACTGTGGAAGCCTTG | 173–197 | 3.0 | 55 | Ruth et al. | AF108370 | |||||||||
| R: GGCTGAGGAGTAAGCTGAAAG | 1999 | ||||||||||||||||
| COR059 | microsatellite | 1p12.3– p12.2 | F: ATGAATGGCAAATTGAAGGA R: TTCTGTTTAGGGGCTCTTAGG | 265–277 | 3.0 | 58 | Ruth et al. 1999 | AF108376 | |||||||||
[i] This is a portion of Table 1. Complete table is available as an online supplement. Data shown in bold (horse cytogenetic locations and primer sequences) represent work from the present study. S, new synteny mapped loci; TD, touch-down PCR; Ta, annealing temperature.