Table 3

Repeat motif, chromosome locations and locus variability of 24 Conserved Avian Microsatellite ( CAM ) loci
Marker Repeat motif type in ZF and CH β Details of repeat motif in zebra finch and chicken β Chr. location Sp. typed n #A Exp. length in ZF or CH (bp)^ Minimum expected allele size in ZF or CH (bp)^ Obs. allele size range in ZF or CH (bp)
CAM-01 CA ZF: (A)3 (CA)18 Tgu2: 42810182 ZF: 12 6 323 284 306 – 345
CH: (A)3 (CA)13 Gga2: 67828480 CH: 4 2 323 294 323, 325
CAM-02 CA ZF: (CA)16 Tgu7: 12381541 ZF: 11 9 373 341 365 – 389
CH: (CA)10 CG (CA)9 Gga7: 22132454 CH: 4 1 350 310 346
CAM-03 TG ZF: [(TG)5TC]2 (TG)3 TC (TG)27 Tgu7: 9747717 ZF: 12 11 209 123 168 – 269
CH: (GA)2 CCTCCTC (TG)5 (TA)2 (TG)14 Gga7: 24391832 CH: 4 2 (164) (111) 153, 163
CAM-04 GA ZF: (GA)11 Tgu1: 34220431 ZF: 12 3 283 261 278 – 284
CH: (GA)11 Gga1: 133721521 CH: 4 1 (275) (253) 275
CAM-05 CA ZF: (CA)17 Tgu1A: 45129155 ZF: 7 6 216 182 206 – 223
CH: (CA)3 GACATA (CA)12 (C)4 GGCCG (A)13 CAACC (A)14 C(G)4 (A)7 Gga1: 47660443 CH: 4 2 (198) (109) 194, 197
CAM-06 AT ZF: (AT)4 GT (AT)8 TTATGT (AT)7 Tgu1A: 49994076 ZF: 8 5 284 190 283 – 295
CH: (AT)11 (W)4 G (TA)6 (W)13 G(T)3 Gga1: 52304006 CH: 4 1 278 190 278
CAM-07 CT ZF: (CT)3 CC (CT)17 Tgu1A: 51267786 ZF: 12 6 234 153 233 – 265
CH: (CT)6 CC (CT)11 Gga1: 53412026 CH: 3 1 234 166 235
CAM-08 TA ZF: (T)6 (TA)9 AA (TA)6 Tgu10: 3390752 ZF: 12 1 224 157 220
CH: (T)5 (TA)8 AA (TA)6 Gga10: 516461 CH: 4 1 (221) (186) 219
CAM-09 GT ZF: (GT)11 Tgu4A: 8999969 ZF: 11 8 325 303 314 – 324
CH: (GT)14 Gga4: 17039238 CH: 4 (2) € (324) (294) (166, 193)
CAM-10 GT ZF: (GT)22 Tgu13: 16024201 ZF: 11 8 201 157 183 – 210
CH: (GT)15 Gga13: 1070809 CH: 2 1 (183) (153) 186
CAM-11 GT ZF: (GT)23 TguZ: 39096210 ZF: 12 6 147 101 145 – 157
CH: (GT)11 GgaZ: 7888318 CH: 4 1 123 101 117
CAM-12 CA ZF: (CA)20 Tgu2: 70094313 ZF: 12 9 370 330 371 – 433
CH: (CA)2 GA (CA)2 CGCGTG (CA)2 CG (CA)3 TA (CA)13 Gga2: 62785492 CH: 3 2 (346) (290) 346, 348
CAM-13 TC ZF: (A)26 G(A)3 G(A)4 G(A)5 G(A)3 G(A)5 GCAAC (TG)2 (TC)6 TT (TC)12 C(T)10 Tgu6: 26899281 ZF: 12 7 233 106 225 – 232
CH: (TC)5 T (TC)16 (C)4 (T)13 Gga6: 28449965 CH: 4 1 229 101 223
CAM-14 CA ZF: (CA)24 TG (CA)6 Tgu9: 5387194 ZF: 12 8 365 136 346 – 377
CH: (CA)13 Gga9: 5323789 CH: 4 2 353 327 352, 354
CAM-15 GA ZF: (GA)13 Tgu1A: 61859791 ZF: 12 3 266 240 260 – 266
CH: (GA)7 GG (GA)2 GG (GA)13 Gga1: 73032096 CH: 4 2 (273) (178) 247, 249
CAM-16 CA ZF: (CA)16 Tgu17: 4369074 ZF: 11 5 290 258 287 – 301
CH: (CA)15 Gga17: 4598995 CH: 3 1 (310) (280) 301
CAM-17 TG ZF: (T)9 G(GT)4 CC (TG )2 (TC)3 (TG)12 Tgu3: 2816652 ZF: 12 6 209 132 205 – 218
CH: (T)3 (TG)14 (CG)4 (TG)2 CGG (TG)4 Gga3: 10551236 CH: 3 2 207 153 204, 208
CAM-18 TA & TG ZF: (TA)11 T(TA)5 (TG)7 & (AT)6 Tgu3: 31630754 ZF: 12 6 342 159 336 – 348
CH: (TA)10 T (TA)5 (TG)11 & (TA)4 Gga3: 31888225 CH: 2 1 347 185 348
CAM-19 GT ZF: (GA)3 (GT)6 TT (GT)9 Tgu1: 112898014 ZF: 12 6 231 180 227 – 248
CH: (T)3 (GT)20 Gga1: 199733800 CH: 4 1 228 156 227
CAM-20 AT ZF: (AT)5 TT (AT)11 & (A)12 G(A)7 Tgu24: 5214087 ZF: 12 6 194 61 185 – 193
CH: (AT)3 AA (AT)9 & (AT)5 & (A)14 Gga24: 2939427 CH: 2 1 187 75 182
CAM-21 TG ZF: (TG)13 Tgu2: 2028140 ZF: 12 4 277 251 265 – 274
CH: (TG)12 Gga2: 2408229 CH: 4 1 (287) (263) 287
CAM-22 GT ZF: (A)8 & (GT)13 Tgu18: 10770012 ZF: 12 5 137 95 134 – 152
CH: (A)5 & (A)6 & (GT)12 Gga18: 6214289 CH: 4 2 (134) (88) 126, 131
CAM-23 TG ZF: (TG)18 (AG)5 GC (AG)3 Tgu6: 30010998 ZF: 12 5 147 93 140 – 151
CH: (TG)5 TC (TG)11 TT (AG)9 Gga6: 31243934 CH: 4 1 (147) (93) 149
CAM-24 CA ZF: (CA)3 (CG)2 (CA)13 Tgu1A: 1456627 ZF: 12 6 119 86 111 – 125
CH: (GA)4 (CA)2 CG (CA)2 CG CACT (CA)15 Gga1: 2092872 CH: 4 1 121 67 111

bp, base pairs

ZF, zebra finch Taeniopygia guttata;

CH, chicken Gallus gallus;

β, The repeats shown in bold indicate those possessing the longest string of uninterrupted dinucleotide repeats;

Sp, species;

Exp. length in ZF or CH (bp), expected PCR product size based on the pure zebra finch (ZF) or pure chicken sequence (CH);

^, those expected allele sizes in parentheses assume that a product is amplified in spite of the additional mismatches between the primer bases and the chicken genome.

Minimum expected allele size in ZF or CH (bp), is based on the same sequences as above but after the deletion of the repeat region and repeat-like regions;

n, number of individuals genotyped (of species stated);

#A, number of alleles observed in the individuals genotyped;

€, same two alleles amplified in all individuals. Based on difference between the expected and observed allele sizes we suspected a different locus is amplifying in chicken;

Dawson et al.

Dawson et al. BMC Genomics 2013 14:176   doi:10.1186/1471-2164-14-176

Open Data