Table 2 SNPs and SSRs detection in the candidate genes using in silico detection (a) and re-sequencing (b).
From: Mapping a candidate gene (MdMYB10) for red flesh and foliage colour in apple
a) | ||||||||
|---|---|---|---|---|---|---|---|---|
Number of cDNA clones in the contig alignment (number of cultivars) | Contig size (bp) | Number of SNPs | ||||||
MdBHLH3 | 8 (3) | 2,717 | 19 | |||||
MdTTG1 | 10 (5) | 1,575 | 2 | |||||
MdBAN | 51 (12) | 1,468 | 21 | |||||
MdCHS | 87 (9) | 1,548 | 29 | |||||
MdDFR | 21 (7) | 1,542 | 6 | |||||
MdF3H | 30 (6) | 1,388 | 3 | |||||
MdANS | 19 (5) | 1,468 | 23 | |||||
Total | - | 11,706 | 103 | |||||
b) | ||||||||
Intron | Exon | |||||||
Gene ID | Number of cDNA clones in the contig alignment (number of cultivars) | Size of the PCR fragment sequenced (bp) | Size (bp) | Number of SNPs | Size (bp) | Number of SNPs | Total number of SNPs | SSR |
MdMYB10 | na | 1,945 | 1,331 | 9 | 614 | 2 | 11 | - |
MdMYB9 | 2 (2) | 606 | 203 | 0 | 403 | 1 | 1 | CT15 |
MdMYB17 | 3 (2) | 1,392 | 1,010 | 0 | 382 | 0 | 0 | T14 -- AT10 |
MdBHLH33 | 4 (3) | 1,168 | 593 | 6 | 575 | 4 | 10 | - |
MdANL2 | 4 (3) | 635 | 137 | 0 | 498 | 0 | 0 | - |
MdMYB12 | 5 (2) | 730 | 223 | 4 | 507 | 4 | 8 | TGTA14 |
MdBHLH3 | 8 (3) | 522 | 99 | 0 | 423 | 0 | 0 | CT15 |
Total | - | 6,998 | 3,596 | 19 | 3,402 | 11 | 30 | 4 |