Table 3 Polymorphic candidate genes, location of polymorphisms, amino acid change and haplotype diversity
Gene | Chr. | Acces-sions | Poly-morphic sites | SNPs | in-dels | Promotor | Intron | Exon | 3` UTR | Non-coding | Non-syno-nymous | Syno-nymous | Haplo-types | Hd |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
CBF-A3 | 5A | 235 | 4 | 4 | 0 | 0 | 0 | 4 | 0 | 0 | 3 | 1 | 2 | 0.30 |
CBF-A5 | 7A | 235 | 6 | 5 | 1 | 1 | 0 | 5 | 0 | 1 | 3 | 2 | 4 | 0.54 |
CBF-A10 | 5A | 235 | 2 | 2 | 0 | Â | 0 | 2 | 0 | 0 | 1 | 1 | 2 | 0.30 |
CBF-A13 | 5A | 235 | 6 | 4 | 2 | 1 | 0 | 5 | 0 | 2 | 4 | 0 | 3 | 0.30 |
CBF-A14 | 5A | 235 | 6 | 5 | 1 | 5 | 0 | 1 | 0 | 5 | 0 | 1 | 3 | 0.30 |
CBF-A15 | 5A | 235 | 7 | 6 | 1 | 0 | 0 | 7 | 0 | 0 | 5 | 2 | 2 | 0.30 |
CBF-A18 | 6A | 235 | 37 | 34 | 3 | 1 | 0 | 25 | 11 | 12 | 12 | 13 | 3 | 0.20 |
VRN-A1 | 5A | 235 | 15 | 10 | 5 | 7 | 6 | 2 | 0 | 13 | 2 | 0 | 6 | 0.19 |
VRN-B1 | 5B | 235 | 24 | 21 | 3 | 20 | 4 | 0 | 0 | 24 | 0 | 0 | 5 | 0.07 |
VRN-D1 | 5D | 235 | 2 | 2 | 0 | 0 | 1 | 0 | 1 | 2 | 0 | 0 | 3 | 0.14 |
VRN-B3 | 7B | 235 | 1 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 3 | 0.50 |
Cab | 5A | 235 | 28 | 24 | 4 | 5 | 0 | 12 | 11 | 16 | 12 | 0 | 6 | 0.64 |
Tacr7 | 2B | 235 | 3 | 2 | 1 | 0 | 0 | 1 | 2 | 2 | 1 | 0 | 3 | 0.40 |
PPD-B1 | 2B | 235 | 5 | 5 | 0 | 1 | 0 | 4 | 0 | 1 | 3 | 1 | 6 | 0.37 |
PPD-D1 | 2D | 235 | 109 | 97 | 12 | 1 | 53 | 55 | 0 | 54 | 22 | 33 | 6 | 0.68 |
total | Â | Â | 255 | 222 | 33 | 42 | 64 | 124 | 25 | 132 | 69 | 54 | 58 | Â |