Table 2.

Loci and Corresponding PCR Primer Sequences of Chromosome-Specific Markers

Marker name Forward primer 5′–3′ Reverse primer 5′–3′ PCR size (bp) Repeat PCR conditions Chromosome Band assignment Nomenclature Mellersh et al. 2000
AHT K338 ACAAAGCAATTTTTGCTACAAGC TAATAGGTGTGGGACATTCGTT 291(GT)12PCR55/4mMCFA 1q11-q12CFA 1
AHT H304Ren CTCCTTGGTCCCCTCTTTTCTC TATTCATTTCTCCCTGTGTCCAATC 249–TD61/2mMCFA 1q37distal-q38CFA 1
AHT H72Ren TTTAGCATTTTCCTCTGGCTTT ATCTGGTCTGTTTGCCTTCC 172–TD65/2mMCFA 2q12.3-12.5CFA 2 + RH7
LEI 1D6 GCTCCATCCACATCATTGC AGCAGCATCGACAATAGCC 172(AC)15TD66/4.5mMCFA 2q34distal-q35prox.CFA 2 + RH7
AHT H255Ren GTCCCAAAGGCTTTCCAAAT GATGGCTGGGTCCTGTCTTA 168–TD67/2mMCFA 2q35prox.CFA 2 + RH7
AHT H291Ren CAAATTCTGCCTGAATATACCACAA TATCAAGCAGTCCTCCTTTGACAGA 254–TD61/2mMCFA 3q21.1-q21.3prox.CFA 3
LEI 1E12 GGAAATGCATGTAGATACATGTG AGAATGGGAATTGGAAGTCAGG 152(TG)13TD61/4.5mMCFA 3q22.3CFA 3
AHT H219Ren CTATGAGTCAAGACTAGGGGCAGTG AGAGCTGTCTCCCAGAGACGTTAAG 296–TD61/2mMCFA 3q22.3distalCFA 3
AHT1.37 AACTTTTATTTTTTCACTTA GCTCTAATCAGAACAATCA 389(GT)11TD45/3mMCFA 4q22Synt. 1
AHT H1.37Ren ACTGCCCAGAGGAAGGAGAG TGGTACATTTAGGGGCAACA 202–TD59/2mMCFA 4q22Synt. 1
AHT H142Ren CATTGGGGTAAAAGCTGCAT TTTGATGGGGACAGAGCTTC 163–TD65/2mMCFA 4q33distal-q34.1Synt. 1
AHT H68Ren TGCTTTCTTTGCTTATTCCTATGAT TGAGAGTCACTCCATTGCTTAGTTT 248–TD61/2mMCFA 5q11-q12prox.CFA 5
AHT H248 GGCCACCCCCCAACAC TGTAGAGTGGAGCTCAAGAATTTG 139(CA)19PCR55/3mMCFA 5q12CFA 5
AHT K315 GCCAAAATCGCTCTCCCA TTGGAGTGGGCACCAAAA 260(TG)19TD46/2mMCFA 5q33distal-q34.1CFA 5
AHT H201Ren CCTCACAGGTTCCCTATATCAGCTT ATGGAAGGTGGATTAGACAGAGAGG 248–TD61/2mMCFA 5q35-q36CFA 5
AHT H171 CTCACCAGGCATAGACACTCAG CTCATTTGTTCACGCACCC 131(GT)19TD53/1mMCFA 6q11distal-q12prox.CFA 6
LEI 2A11 CATAGCGACATCACATAAGT GGGCTGATAATTCAGTGAGA 184(AC)17TD72/2mMCFA 6q21.3CFA 6
AHT H228Ren GCCTTATTTTTGTCTCTGCTCCAGT GGGAGGTTCACAGACTTACAGGAAT 234–TD61/2mMCFA 6q21.3distal-q22CFA 6
AHT H289 GGGACCTGGTAGGCTGAACT ATGAGCATGATGGTGTTCCA 153–TD63/4.5mMCFA 7q11CFA 7
LEI 1B10 TTGTCTTTAGACTCAATAGTAGC CCCAACGATCCGTTCTTTGAC 119(GT)18TD63/4.5mMCFA 7q15-q16.2CFA 7
AHT H71Ren CAGGGCAGTGTCCCTAGAAG GGGTGGTGGACAAAGTCATT 159–TD69/2mMCFA 7q25distal-q26prox.CFA 7
AHT H240 GTCCATGACTGGCTCAGGTTT TTGAGGCCTAGAACTCTG 163(GT)27PCR55/4mMCFA 8q11CFA 8
AHT H240Ren CCCCACTTCCTCTGGTCAGT GCTCCAATCACCACCATTCT 141–TD65/2mMCFA 8q11CFA 8
LEI 2D2 CGAGACCACATTGGGCTCC CCAGACGCTCTCCATGCCTC 390(GAAA)9TD63/4.5mMCFA 9q25prox.CFA 9
AHT H183Ren TTATCAGGTGAGTCCAGTGTCATCA TTTCTGATCCTTCAAGCCATAAGGT 252–TD61/2mMCFA 9q26.1-q26.2prox.CFA 9
AHT H181Ren CTAGCATGTTGTAGCCCCCTAAACT TGAGGTTCAGAGTTTCACACATCTTC 252–TD61/2mMCFA 10q11prox.CFA 10
AHT H51 CTGGGTCTGCGCCTAGCTT CACAGATTTAACTTTCCAGAACTGC 407(AC)22PCT45/3mMCFA 10q14distal-q21prox.CFA 10
AHT H203Ren CTTTACCTGCTTATGCTCACTCTCG TCTTCCTGTGGGAGTTGAGAACAT 157–TD61/2mMCFA 10q23.2-q24prox.CFA 10
AHT H279 GCACATGCTCCATTAACCCC CACTATCTCCTGGCCTCTTCC 184(GT)19PCR55/3mMCFA 11q11distalSynt. 4
AHT H155Ren CTGCACACCTACCCCAGAAT CACGCACGTGCTTAAACATT 123–TD65/2mMCFA 11q22.3-q23Synt. 4
AHT H127 ATCGACTTGTTCTTTGTCTCAGC TTTGGATATGATGGGGAATTTA 178–TD55/2mMCFA 12q22-q24CFA 12
AHT H1.47 GGCAGTGAATCTGTTGTGAGTT GAGAAATGAGGATAAAACGACACC 258(CA)21PCR55/2mMCFA 12q23distal-q24CFA 12
AHT H239 TGTTTCATTGGTCTGCGTGT TAGGAGGCCGATTCTCTTGA 263–TD67/2mMCFA 13q21.2Synt. 8
AHT H310 CTTTGCCTGCAGGAGTTTTC ACGTCAGGCATCCATGCATG 180(GA)12PCR55/1.5mMCFA 13q22.2Synt. 8
AHT H262Ren CTCATCCATGCACGTCCTTT TTAGGGAACAGGAAGCCTGA 146–TD69/2mMCFA 14q11Synt. 9
AHT K207 CAATCTTCCAACAACCTTGT GTCCTTGAGGGGTTAATAAT 94(GT)18TD56/1.5mMCFA 14q23Synt. 9
AHT H257 CCCACACCTTTGCTGGAC TGGGAGATCCAAGAGGAGG 126(TG)8C(GT)10PCR50/3mMCFA 15q13Synt. 6
AHT H17Ren TAGAGTAAGGGGCTCAAACATCACA ATGGAACCAGAGAACACTTTGGAA 237–TD61/2mMCFA 15q24Synt. 6
AHT H260 CGCTATACCCACACCAGGAC CCACAGAGGAAGGGATGC 245–TD69/2mMCFA 16q14Synt. 12
AHT H282Ren TCCATTAACAAGTGCGTGTCAGATA CTCAGAGATTCGCTCGACTTAAAGA 262–TD61/2mMCFA 17q11CFA 15 + Synt 16
AHT H265 GGACCCCTAATACCCAGTAACATT GTGCAGGCTATAAACCAAAAACTT 238(AC)15TD53/4mMCFA 17q15CFA 15 + Synt 16
LEI 1E3 GAGGAGATCCTAGTAACACC GCTGGTGTTCCTAAAAAGCC 220(TG)14(GA)14TD63/4.5mMCFA 18q23-q24prox.CFA 18
AHT K32 TACCAAGACCCAACAGCAAG GAGCCTGCTTCTCCTTAT 159–TD59/2mMCFA 18q25.1-q25.2CFA 18
AHT K292Ren TTTGTACTCCTAGGACAAGGATTTG TCCTCCTGTGACAATTTCAGG 250–TD61/2mMCFA 18q25.3distalCFA 18
AHT H67 CAGGGGCTTGTTTTCCTTGA AGGATGGTTGGTTAAGTG 282(CA)12PCR60/3mMCFA 19q21-q22CFA 13/19
AHT H216Ren CGCCCGATTTTCTTTGTTAG GGCAAAGGAGGACACAGGT 143–TD69/2mMCFA 20q11prox.CFA 20
AHT K20 GTACAGTGGTCACATAGAGG CTCAAAGGCGTTCTTTCCAG 169–TD59/2mMCFA 20q15.3prox.CFA 20
LEI 1B7 GCAATCCCACCCCAAAGA CTGTTGCTATGATCATGGGTG 198(GAAA)4(GA)  18(GAAA)13TD63/4.5mMCFA 20q15.3distalCFA 20
AHT H284Ren CTCTGAGAACAGGAACAGCAAATTC CTCAGTGAACTCACCCCAAGACATT 243–TD61/2mMCFA 20q16-q17CFA 20
AHT H298 CCAGGCATTCGAGGGTG TCCCAGAACTTGAGGAACCATAG 103(GT)12PRC45/3mMCFA 21q13.3distal-q21prox.Synt. 2
AHT H211 AGCTTCAGGCACAGGGGT CCAGGGAGGTGAAAAATGACT 348(GT)19TD53/2mMCFA 22q11.2Synt. 7
AHT K253 CTCAAAGGCGTTCTTTCCAG GCACATGGAGGACAAGCAC 146(TG)20TD56/2mMCFA 23q13CFA 22
AHT H180 TCTGTGCTTTGATTAGCAGCAT GGAGCCTGACAGTGAGTGGA 250–TD59/2mMCFA 23q23CFA 22
AHT H138 ACTGGGTGTCCTATTGATGTTTT TATACACAGCGCCCAACACAC 204(GT)19TD53/2mMCFA 24q11Synt. 5
AHT H9bRen AGTTCAGTCCAGGGCACCTA CGTGCAGGATTCCCTCTTTA 154–TD69/2mMCFA 24q24Synt. 5
AHT K120 GGGTCTCAGACACTGTGTGC TTGCAGGCTAGGCTTTTCTC 115(CA)17TD61/2mMCFA 25q21.3-q22Synt. 10
AHT H226 GGGCAAGCTACCTTTCCACTCT CTTTTTAATGAGCCCTTCATGGAAT 210–TD61/2mMCFA 25q24distalSynt. 10
AHT K211 TTAGCAGCCGAGAAATACGC ATTCGCCCGACTTTGGCA 92(CA)13TD63/4mMCFA 26q13distal-q21CFA 26
AHT K200 GATTTATCAGTTTGGAGGGTG TGTAGAAATCCTGAACATTACA 65(GT)14TD61/2mMCFA 26q23-q24prox.CFA 26
AHT K18 CAGATGAGGAAGTGTGCGTG CTGCCTCCTCTAGCCTTCTG 89(GT)15TD59/2mMCFA 27q11CFA 16
AHT H197Ren CGAGGGGCCTAAAATCTAGC GGCAGGACCCCAAATTAGAT 156–TD69/2mMCFA 28q11Synt. 14
AHT K135 GCAGCTCTCAGCACCCACAC GTGAGTCCACTTGGGGCG 223(GT)12TD60/2mMCFA 28q18Synt. 14
AHT K40 TAACGTGCTGGTTTTAGACTGATC CACATGGAGCCTGCTTCTC 221(CA)18TD56/2mMCFA 29q13-q15Synt. 3
AHT H235Ren GCCTGCTTCACAAAATGACA GGCAAGTTTCCTGAGCTGAC 172–TD69/2mMCFA 29q22-q23.1Synt. 3
AHT H134Ren CCCGTCCTTAACCACATGAT AGCTGGTGACCCAGGTAGTG 167–TD69/2mMCFA 30q13-q14prox.CFA 30
LEI 1F11 TTTCAGAGTTCTGATGCTCC GTCAGTTCAATTAGCCAGAG 175(GT)19TD54/4.5mMCFA 30q15.1distal-q15.2CFA 30
AHT H246 ATTTTCATTCCGAGGTTCTAACTG ATTCACCATCTCGTAGCCTTTATC 260(GT)16TD53/3mMCFA 31q15.3Synt. 13
AHT H327 TCAGCTTATGTCCTTACATTTG TCCCGGTGCATGGAG 301(CA)21TD57/4mMCFA 32q11.2distal-q13Synt. 15
AHT H327Ren TGCCAGATTCCTCAACTTCC CTGCACACAAGAGGTGATAAGC 139–TD69/2mMCFA 32q11.2distal-q13Synt. 15
AHT K336 GGTGAAGATGGGGTGATTTG TCTTCAGATTCCACCGGTTT 200–TD69/2mMCFA 33q15.1distal-q15.2CFA 29-35
AHT H131Ren CCCACCCCAAGTATGTCCTA CCTCCTGCTCTTGAAGCAAC 145–TD63/2mMCFA 34q12-q13RH1-b
AHT H163 AATATAATGGAAAGGAAGATTAGGC CAATCCAACAGTACCTTGAAAATG 223(CA)22PCR45/1.5mMCFA 34q14RH1-b
AHT H53b TGGTGTGTGGAAAAGGGACT AGCAAGCTGGTCAAGAACTCC 167(AC)10PCR55/2mMCFA 35q14RH5-b
AHT H53Ren CACTGGACTGTGGGCAGAGAT TCTGAACTGGGCATGGATC 309–TD69/2mMCFA 35q14RH5-b
AHT H1261D AGCTGCTTCTCCCTCCTTTAGTCTG AGCTGAAAGGTTTCCGGAGG 100(AC)12PVR58/1.5mMCFA 35q14RH5-b
AHT H31Ren CAGGTTCCCTCTCCACCTTT TTTCAGGCAAGCCTCTCATT 150–TD65/2mMCFA 36q13Linkage-gp 1
AHT H130 GTTTCTCTCCCTTCGGGTTC GACGTGTGTTCACGCCAG 130(GT)22TD59/3mMCFA 36q14Linkage-gp 1
AHT H128Ren AGTCCCAGGCAGGAGAGAAT TGATCCCCGATTGTGTTGTA 148–TD67/2mMCFA 37q11-12prox.Synt. 11
AHT H174 TCAACGGAGTCTTTGAGGAT AAGGAGTACATTTTCAAGAA 121(TG)16PCR45/3mMCFA 37q16Synt. 11
AHT H91 CCCAGTCTTTGTTCTCCTG AGGACTCTTTCAGGTACTCGGTC 206(GT)17PCR45/3mMCFA 38q15.2Synt. 17
AHT H91Ren GGACCGAGTACCTGAAAGAGTC TTCTTTAACCAGTCAGCCACAC 200–TD67/2mMCFA 38q15.2Synt. 17

[i] Loci and corresponding PCR primer sequences used to anchor RH and meiotic linkage groups to their corresponding dog chromosome. Where a microsatellite marker was isolated from the clone, the repeat motif is indicated in Column 5. For the PCR conditions (Column 6) the annealing temperature, as either as a single temperature (PCRxx) or a standard touchdown program (TDxx), is presented followed by the magnesium chloride concentration. The chromosome to which each marker was assigned by FISH is indicated in Column 7. The band assignment for each marker is based on the DAPI banded ideogram reported in Breen et al. (1999b). The nomenclature of the RH groups used by Mellersh et al. (2000) are presented in the final column.