From: Pseudo-backcrossing design for rapidly pyramiding multiple traits into a preferential rice variety
No. | SNP name | Chr. | Trait | Tag number | SNP type | Amplicon size (bp) | Forward primer (5′---3′) | Reverse primer (5′---3′) | SNP-specific primer (5′---3′) |
---|---|---|---|---|---|---|---|---|---|
1 | Sub1C | 9 | Sub | 9 | A/G | 111 | ACGAGCCGACGACGACGA | ATCTCCGACGCCCACCTC | CCGCCAGTAAGACCTAGACGCGGCGGCGGCGGCGGCGGAGGGAGA |
2 | xa5* | 5 | BB | 2 | C/G | 303 | GGCCACCTTCGAGCTCTACC | CAACATTGCAACTCCGTGATAAG | CTCAGACTACGAATCCACGTGTAAAGTAGATACCTTATCAAACTG |
3 | Xa21 | 11 | BLQ11 | 40 | T/C | 141 | AAAGCTAGGCTGCTAGTGCTG | AAAATAGTATATATGTACCACTGCTTCTT | AAGTACCACGTCAACGTCACTATGCTTCAAGGTCAGGGTGGTCGA |
4 | SSIIa | 6 | GT | 25 | G/T | 89 | CCACTGCCTCGAGACGTA | CGTGGTCCCAGCTGAGGT | CCATAACAACTTACCAGCCAGCAAGTACAAGGAGAGCTGGAGGGG |
5 | Waxy | 6 | AC | 31 | G/T | 141 | TTCACTTCTCTGCTTGTGTTGT | TACTTGTAAGGAAAAACGAGCAA | CAGAACATCCTCAGAAGCAAGTTCATCAGGAAGAACATCTGCAAG |
6 | aromarker* | 8 | FR | 41 | A/G | 400 | AATCATGTATACCCCATCAA | TTTCCACCAAGTTCCAGTGA | TACCTATGACCAGCAAGCACAACCTTAACCATAGGAGCAGCTGAA |
7 | Hd1 | 6 | Photo | 13 | C/G | 152 | TCCAAAGATTCCGACAACA | TTGTCGTAGTACGAATTGTACCC | CAACAATACGAGCCAGCAAGACAACAACAACGACAACGACAATAA |
8 | TPS_Chr4_ATHB1* | 4 | Bph3 | 27 | T/G | 264 | AAGCGCTTATATTCAAGCAGAA | TCCATTCTTCCGATCTCTGG | GCAAGCCATCAGCTAATACATTCATGAAACAGTTCTAGCAATAAT |
9 | Bph_Chr6_1210* | 6 | Bph3 | 17 | T/C | 287 | GAAAGCCTTTGAAACAAAGTATTGA | CTTGAATTTGAAGTTGATTTTAGGG | GCAGACAACGAACAACTACCAAACGGCATATTTGCAAACAGAAAA |
10 | Bph_Chr6_3380* | 6 | Bph3 | 22 | T/C | 300 | AGAGGAAATGATTCAAGGAG | AGCTAGCAGGCGTAGCTTAT | GCAACATAAGACCGCTCAACTAGTTAATTTCACGCCATGACAGAT |
11 | Bph_Chr6_1380* | 6 | Bph3 | 19 | A/G | 296 | TTTTGTTTTCTTCTTGAGAGTGGTC | CAAGGTAATGACATCAAGAACCAAT | CCACTCAACTCCACGAATACCACATGTTTATTTTTAATTTCACAG |
12 | TBGI055716 | 1 | BLQ1 | 24 | T/A | 169 | ACGATGCGGCACTCGTCG | TGTTCTTGAACGCGGCGA | CAACAAGACATAACAACGCAGTGGAGTGGTGGATGAAGCGGAAGA |
13 | TBGI055578 | 1 | BLQ1 | 42 | A/G | 93 | ATTTGCTGCTCATGGTGG | TGGGGAAGCCGAGGAGAT | CTCACTATCTGACAAGCCACGTGGAGCCTCCTCACCAGGAAGTGC |
14 | TBGI055841 | 1 | BLQ1 | 46 | T/C | 115 | ATTGGCATCGTTTGGTCTG | ATTCCGTGCATATATACGAACTTC | ACAGATCACTCACCGACTAAATACCTGCGTCGAGTAGAGACGATG |
15 | TBGI454069 | 11 | BLQ11 | 14 | A/G | 142 | TGAATTGTCGTCCTCTAACAAC | TATGGAATATCTGCATCATGAAC | AACATACAGACGCACTCCTCTCTTTGCTATGCCAAAGTCTGCTAC |
16 | TBGI453598 | 11 | BLQ11 | 23 | C/T | 90 | TTTGCTGTGACGGGAAGA | AAAAAGGAACTAGCCAGTTTTG | AGTAGCCTAACAGCACTCGAAAGATCGAGTGCTCTATTGCAACCG |
17 | TBGI453126 | 11 | BLQ11 | 32 | C/T | 92 | ACCGACGCTGCTGCAGAA | AGCGGTTATGGATGGCTAA | CAAGCAACGACCTACTACAAGCATGGCGTTTGAGCGCGTCCTGGG |
18 | TBGI454717 | 11 | BLQ11 | 36 | T/A | 132 | ATCCTACCGTCCGCTCTG | AATTCGGTCTTCGTAAACACG | CACCGCTATCAACAGACTTGGTGCGGTAGTTTCTGGGAAGCTACG |
19 | TBGI454800 | 11 | BLQ11 | 38 | G/C | 113 | TACTACAACAACAGGAACGCC | TTGATGATGAAGTGGATGAGC | ACGTAAGACCACTCAAGACCAGAAGACGCTGAACAGGATGGCGAT |