Table 2.
Locus and marker information for AGPaseS and Pain-1
| Locus (chromosome) | Encoded protein | Primer name | Primer sequence (5′–3′) | Transcript size (bp) | PCR product size (bp) | No. of DNA fragments scored (assay type) | T A (°C) |
|---|---|---|---|---|---|---|---|
| AGPaseS-a (I) | ADP-glucose pyrophosphorylase, large subunit S | AGPsS-7 |
f-gttcgtagatatgccacgtctt r-acctcgacaaatccatctcc |
297 | 580 + 500 | 2 (SCAR) | 57 |
| AGPsS-9 |
f-cagattttgggctggtcaagatt r-tgttccaatgtcttcccaat |
311 | 600 | 1 (SSCP) | 56 | ||
| AGPsS-10 |
f-ccagcagctattgacgattacaa r-atccttcctctggtcggtct |
505 | 1,200 | 2 (SSCP) | 61 | ||
| Pain-1 (III) | Soluble acid invertase | Pain1prom |
f-gaccatacgtggctgacaaaattc r-ctggaatggtactgcgtggc |
– | 1,020 | 7 (SSCP) | 63-58a |
SCAR sequence characterized amplified region, SSCP single strand conformation polymorphism
aTouch down PCR: The annealing temperature in the initial cycle was set 5 °C above the optimal T A of the primers. In subsequent cycles, T A was decreased in steps of 1 °C/cycle for five cycles and then maintained for 30 cycles