Table 4.
Haplotype SNP set designed to predict genetic male sterility in Gossypium hirsutum conferred by paired recessive genes, ms5 on A12 and ms6 on D12
| Chromosome | SNP name | Polymorphisma | TaqMan SNP assay oligo sequenceb |
|---|---|---|---|
| (5′→3′) | |||
| A12 | MOGH583971 | C/T(ms5) | F: AGAACATTGATTATTACTGCCCCGAAT |
| R: GGCTCTCTTTTTGCTAAGCATGATT | |||
| P-FAM: CTTGGACTTCACTTTAC | |||
| P-VIC: CTTGGACTTCGCTTTAC | |||
| A12 | MOGH582973 | C/T(ms5) | F: CCGGTTCGGTTTATAAGAGAAGATCTG |
| R: AAATGTCTTTCTCTTCCTCGGAACC | |||
| P-FAM: CTCTCACTCAATACTC | |||
| P-VIC: ACTCTCACTCGATACTC | |||
| D12 | MOGH211275 | C(ms6)/G | F: AGCTAATGCTCTCTGACGGAACTA |
| R: ACAAAAGAGTAGATTTTAGTGTACCGTGTATTT | |||
| P-FAM: TGTGCGTAATTCATGATC | |||
| P-VIC: TTGTGCGTAATTGATGATC | |||
| D12 | MOGH493571 | A/G(ms6) | F: CTCTCGGGCCTGAACGA |
| R: GCTTTTACATCCCGGCTAAGACA | |||
| P-FAM: TGGGACGACGTTGAA | |||
| P-VIC: ATTATGGGACGATGTTGAA |
aSingle-nucleotide polymorphism linked to ms5 and ms6 was indicated by “ms5 or ms6” designation
bF, R, P-FAM and P-VIC represent forward primer, reverse primer and two probes labeled by FAM and VIC dyes, respectively. Oligo sequences for SNP markers and template sequences of ms5 and ms6 are available at CottonGen (http://www.cottongen.org/search/markers)