Table 2 Development and mapping of microsatellite markers for catfish BAC clones
From: A first generation BAC-based physical map of the channel catfish genome
Clone | LG1 | Contig | Successful STRAP | Observed repeat | Sense/Antisense primers2 | Alleles in mapping reference families (bp) | I.M.3 |
|---|---|---|---|---|---|---|---|
GY001C07 | U16 | 224 | (AAT)10T | (TAA)10 | FAM-CCGTGAAGATTTGTGAGACCG/TGGCTGATCTGGAAAGGGAG | 239, 242, 251, 254 | 92 |
GY003I06 | U16 | 84 | (AAT)9AAA | unknown | HEX-TTCTTGCCTTAAATCACACATCAG/TGTAACCCAATAGCTTATGTAATGTAC | 247, 259, 268, 272 | 89 |
GY006O05 | U13 | 2069 | (AAT)9AAA | (TAA)11 | FAM-ATAATCGTAATGTCTCTCATCTACTG AATACAGTGAAGCAGAGGGCA | 230, 233, 242 | 47 |
GY014A20 | U10 | 375 | (AAT)9AAA | (TAA)14 | FAM-TCCGTCCTTAACTTTAGCATTTAG/TCAAATGGGAAAATCAAGCGTCG | 229, 232, 238, 241, 244 | 144 |
GY014G05 | U26 | 191 | (AAT)9AAA | (TAA)13+ | FAM-GGATTATTCATGTATAGGGATGCC/CCAGACTCCAATAACCACCATAG | 214, 220, 224, 231, 239 | 138 |
GY016J21 | U14 | 2122 | (AAT)9AAAA | (TAA)9 | FAM-ATGTAAGCTATGTTTCACTGTTGCG/TTTGTCCTGCATTGTAGCCTG | 112, 115 | 48 |
GY016M05 | U26 | 191 | (AAT)9AAC | (TAA)7 | FAM-AATGGCGTTGTTGGAATGGTTG/TTCAACGGAGTCATGTTTGGG | 225, 228, 237 | 90 |
GY020C24 | U16 | 84 | (ATA)10G | (TAA)13+ | FAM-CCTGGTGATAACAATACATAAAGTG/GAAAAGGATAATCAGTATAGAAGGTG | 157, 172, 178, 187 | 48 |
GY031O20 | U22 | 104 | (AAT)9AAA | (TAA)13 | FAM-CATCAGATGGGCATCAGACATG/TAATGAGAAGCGGTGGATCAG | 314, 316, 319, 329, 332 | 189 |
GY034A19 | -4 | 23 | (AAT)9AAA | (TAA)7+ | HEX-TTGACTCTAAAAGTGGAACTGTGAG/AAGCCCAGTTTGTAGACATTTTACTC | 232, 235, 238 | 95 |
GY048N07 | U22 | 84 | (AAT)9AAA | (TAA)10 | FAM-CCATTCAGTTAGTCAGTAAAGCTG/CAAAGTAAGGCTTCTGTATTAGTAAC | 256, 265, 268, 276, 296, 304 | 190 |
GY061E20 | U28 | 220 | (AAT)10T | (TAA)8 | FAM-TGGTAAATATGAGAAAAGTAGGCTG/CTTATGGCTGCGGTCGCTTC | 185, 214, 217 | 144 |
GY063K13 | U17 | 358 | (AAT)10G | (TAA)13+ | FAM-ACAAGTATGACTCTGTGCAAATG/GAGATATTAAACGTTACACAGGAAC | 418, 424, 427, 431 | 95 |
GY065J11 | U16 | 84 | (AAT)10G | (CAA)10(TAA)15 | HEX-CACGCGCACTCCAAAACAGG/GGTAGTTTCCTAATCTCTTTAAGTC | 295, 307, 313, 323, 329 | 95 |
GY069G22 | U04 | 422 | (AAT)10T | (TAA)16 | HEX-AGGATGTTTCTGCTTCTGATGTG/CATGACTGCCCTACATTTCCTG | 361, 364, 370, 373, 376 | 180 |
GY074J11 | U22 | 249 | (AAT)9AAA | (TAA)14 | HEX-GCTACCCAACAGGCCCAATG/CCAGTCCTGTGTGCATGAAC | 365, 368, 371, 377, 384 | 186 |
GY082C02 | U09 | 150 | (AAT)9AAG | (TAA)14 | HEX-CTGTTAAATATAAAGCTCAGAAATGTTGC/AAGGCGGAGACATTAGCAAAC | 322, 324, 334 | 184 |
GY082H04 | -4 | 321 | (AAT)10T | (TAA)14 | FAM-ATAATGCATCACCTGTCGAACCC/TCTCTGTGACATGGCAAGCTG | 200, 203, 208 | 96 |
GY085J18 | U05 | 158 | (AAT)9AAG | (TAA)10 | FAM-CGAAGCTGATCTAAACCAGACG/CTTCTGCTTGTCCGCTTCTTC | 234, 236, 242, 251 | 192 |
GY088E13 | U16 | 84 | (AAT)9AAC | (TAA)15 | HEX-GGATGAACCGCTACAGGAAG/GCCTGTTGCAATACTGATCTGTG | 279, 285, 288, 303, 312 | 90 |
GY097F03 | U14 | 2122 | (AAT)9AAA | (TAA)11 | FAM-CACATTATTGATTATGCACATCGTAC/CTGTTAACTGTTCCATTGACGAG | 279, 288, 293, (null) | 67 |
GY098F03 | U16 | 224 | (AAT)9AAC | (TAA)11 | HEX-CATAGCAATTTAATGTAACTGACTTAG/ACTCCTCATCTTAGTAATGGTCTG | 288, 231, 234, 243 | 46 |
GY105F13 | U22 | 249 | (AAT)9AAA | (TAA)16 | FAM-CATCATTGGTCTCAACTACAGG/GATGGAGGGTGTAGAAGCAG | 282, 291, 294, 297, 300 | 143 |
GY105H22 | U05 | 43 | (AAT)9AAA | (TAA)15 | HEX-GATTCTTTATATTGTTGCACCTGACG/CTGAACTCAGGGAAGCCCAG | 309, 312, 315, 321 | 136 |
GY106D19 | U23 | 58 | (AAT)9AAAA | (TAA)10 | FAM-GCTGGAGCTGTAATGTCTCTG/TTCTTTTGAAGCCACATAGTAACACAG | 176, 179, 182, 185, 188, 209, 212 | 190 |
GY107P06 | U23 | 58 | (AAT)9AAA | (TAA)11 | FAM-AGTACGCCCACTATCACCAG/GCGTTGAAATGTTGCATTCTGTG | 230, 242, 245, 248, 251 | 95 |
GY110K13 | U22 | 104 | (AAT)9AAA | (TAA)10 | FAM-ACATTACCCGAAGGTCAGTTTG/TACCCACTGCCATCCCTTATC | 225, 231, 234, 237 | 188 |
GY112F18 | U16 | 84 | (AAT)9AAC | (TAA)13(CAA)3 | FAM-CGGATAAGAAGCTGTTGCTAC/GTAATCATTGGCTTGGTAATTATTAGAC | 300, 302, 319, 328 | 95 |
GY113C07 | U05 | 43 | (AAT)9AAG | Unknown | FAM-GTATGACACGACATCCAAAACGG/GCCTGACTTTCTGGAATTTTCTTG | 119, 122 | 142 |
GY113J02 | U10 | 375 | (AAT)9AAAA | (TAA)17 | HEX-CACGTTCAGGCCAATACAACAC/TGAAGTGGTATCATATAACATTAGGC | 271, 301, 313, 319 | 94 |
GY115E15 | -4 | 321 | (AAT)10G | (TAA)16 | FAM-ACATAGGATTGTAGGAAAACTAACTG/AGTGATTAATCTATGAATTCATGCTG | 215, 219, 223 | 94 |
GY116H16 | U09 | 150 | (AAT)9AAA | (TAA)13 | HEX-TTGTGAGTGTTCTTCATGTGCTG/CCATATCAGATTGATGCATCCTTAC | 187, 193, 196, 199, 208 | 131 |
GY119G01 | U05 | 158 | (AAT)9AAA | (TAA)18 | FAM-CGTGCAACAGAATATTCATTAAATGTG/GTTACTGTATTAATTTCACCCTTGTGG | 236, 253, 259, 262, 265 | 190 |
GY121F03 | -4 | 23 | (AAT)9AAA | (TAA)12(CTA)4 (CAA)8(TAA)7 | HEX-TATCAGTGGGCATGCACATCTG/GATGTTATTAACTGATCATGCTAAATTATTG | 323, 341 | 46 |
GY124F07 | U27 | 1994 | (AAT)9AAA | (TAA)9 | HEX-CGTTATCAAATACAGTGGTGCTTG/GTTTATATTTGTAACACTCAGTTTGTGG | 278, 284, 290, 293 | 47 |
GY125G21 | U27 | 1994 | (AAT)9AAA | (TAA)11 | HEX-AATTCTGTATGCATCTCGGAAATAGC/CTCTTCTGGAAACTCTTACAGTG | 210, 219, 225, 231, 234 | 86 |
GY127H06 | U28 | 220 | (AAT)9AAA | (TAA)23 | HEX-CTTCTTTGCACGGATCACCTG/TTCATTCCCCTCATCACACAG | 257, 263, 269, 281 | 92 |
GY132P10 | U17 | 358 | (AAT)10G | (TAA)11 | FAM-GGGCAGTGGTAGCTTAGTGG/CAGGGAAGCTCAGACTTTTGG | 239, 249, 258, 261, 264, 267 | 184 |
GY135E18 | U14 | 13 | (ATA)10AGC | (TAA)6 | HEX-CAAAATGAACAATCAGGGTAAAGGC/TGGATTACTACACTTTCATATGTGG | 331, 343, 355, 363 | 140 |
GY137B18 | U16 | 84 | (AAT)9AAA | (TAA)16 | HEX-CCTGGTATGACCCGTTTCTTG/TGCGCGAGACACATTTATACC | 169, 181, 190, 192, 195 | 92 |
GY137K09 | U22 | 84 | (AAT)9AAA | (CAA)3(TAA)10 | HEX-CCTATACTCTGCCATTCAGTTAG/TGACCATCCCAGTACAAATGC | 132, 143, 146, 148, 169 | 139 |
GY138C24 | U13 | 2069 | (AAT)10G | (TAA)12 | FAM-CATAGCTGTAGCAGGCAGATTG/ATACGTTTGTACTTGTTGCTAGTGG | 293, 296 | 94 |
GY143D16 | U04 | 422 | (AAT)9AAAA | (TAA)12+ | HEX-GCGTCTGATGAGAAACAAACTATG/ACCAGGAAATTCACCCAAGAC | 142, 145, 155 | 135 |
GY144N04 | U14 | 13 | (AAT)9AAAA | (TAA)10 | FAM-CTTCCTCAGACTGGTGTCAC/TCTACACACCTTCGGTGCTTG | 226, 232, 235, (null) | 47 |