Table 3 Primer Sequences Designed and Used for Fine Mapping of the HWC2 Locus
Marker | Kind of DNA marker (restriction enzyme) | Primer sequence(5′–3′) | Position in Nipponbare chromosome 4 (AP008210) | Source | ||
|---|---|---|---|---|---|---|
From | To | |||||
C11112 | STS | F | CCAGCAACAGGGGATGAAGC | 30325704 | 30325548 | RGPa |
R | CAGGCATAAAACGGAGTGGC | |||||
RM5503 | SSR | F | GGGAAGAAGATAGGAGATGG | 30397622 | 30397822 | McCouch et al. 2002 |
R | CTCTGGGTACACTTCACGAG | |||||
RM1250 | SSR | F | GAAACCACGACTAGGCATCG | 31296033 | 31296199 | McCouch et al. 2002 |
R | CTTCCACAAGGTCTCGCTTC | |||||
0093No3 | CAPS (RsaI) | F | TGTCCCATATCCTCCTTCAC | 31335526 | 31335717 | This study |
R | ACATGGCACACTAGGCTCAC | |||||
93*14.1 | dCAPS (HindIII) | F | CTTTGTCTCTCTTTTTCTTCCACTAAG | 31412533 | 31412724 | This study |
R | AGTGCAAAAGTATTTCCGTG | |||||
174*4D | STS | F | CCGCATGCGCCAAGAAATCC | 31465900 | 31466061 | This study |
R | TCACGGCGCCACCACACGAC | |||||
d54950 | STS | F | CCATCATGCTGAACAAGCTCATTGGAT | 31477258 | 31477426 | This study |
R | TACTCCATCGTGTCCGTGTC | |||||
RM3687 | SSR | F | CTCCTGAGAAGTGGGGACTG | 31517541 | 31517704 | McCouch et al. 2002 |
R | AGTCCTCCATGCATGTGACC | |||||
KGC4M1 | STS | F | CCGATCAGGTGACCAAACTT | 31533990 | 31534079 | This study |
R | GATGCATTGACCATGGAAGA | |||||
KGC4M2 | STS | F | AACGGATCTGGATAGGACCA | 31536677 | 31536812 | This study |
R | GGAGTTGTCTTCTTCCACTGC | |||||
C174*12 | CAPS (RsaI) | F | CCTTTGCTGGTGTCAAGTCA | 31543923 | 31544160 | This study |
R | ACTGGTGCTTCCTGGTCCTA | |||||
KGC4M3 | STS | F | TGTTGAAATAAGACGGCTTGG | 31559019 | 31559107 | This study |
R | CGTTAGCTTCGCTTTCAGTG | |||||
dG264H | dCAPS (HindIII) | F | ACCAGGAGATGACAACACAG | 31560681 | 31560890 | This study |
R | ATCCGCTCCAAATCAGCAAAGCT | |||||
C174*15 | CAPS (MboII) | F | CAGTGGGCTTGTGGGTAAGT | 31572635 | 31572793 | This study |
R | GCACAGCACAGTCAAAGTGG | |||||
111*1 | dCAPS (HindIII) | F | AGAGATGTTAGCAATTTCAATG | 31588152 | 331588361 | This study |
R | CTGTTCCTATCATTTGTGCAACCAAG | |||||
KGC4M5 | STS | F | AATCCCATCGCCCTTGTT | 31611674 | 31611742 | This study |
R | CTGCTGCTGCGGAGACAC | |||||
C111*4 | CAPS (MboII) | F | TTGGGAGGAAAATAGCTAAGGA | 31627739 | 31627938 | This study |
R | TTGCTGTAAGTGGCTGGGTA | |||||
KGC4M10 | STS | F | AATTGATTACTGGATGGCTTGATAA | 31630713 | 31631087 | This study |
R | GGAAGTAGACGAAATCGATGGTAT | |||||
KGC4M20 | STS | F | ACGAGGCGATGTGTCATGT | 31644658 | 31644749 | This study |
R | GCCAGTCCAAACGAACACTTAT | |||||
C111*8 | CAPS (MboII) | F | GTCAGCAGACAACCAGGTGA | 31668298 | 31668529 | This study |
R | CAGCATTATGGTTGAGCATG | |||||
KGC4M21 | STS | F | CGGAAGGTCAAAATTAATCAGAG | 31678330 | 31696684 | This study |
R | ACAGCAATCATCCTTTTCAGTAGAT | |||||
KGC4M8 | STS | F | TGCCTTTTGCTTACCACTGA | 31690516 | 31690609 | This study |
R | AGATCCGGCGGAAGAGAA | |||||
KGC4M28 | CAPS (HindIII) | F | GTATGCAAGATGTATCCATTTTTGTGTC | 31690926 | 31691142 | This study |
R | CATTTTCTTCTTCAGTGATATCAAAGTGC | |||||
KGC4M29 | CAPS (RsaI) | F | CAATCACTTGAGGAACTTTACATCCA | 31695274 | 31695409 | This study |
R | AAGAATGGAGCTGCAGAGACACTAAAT | |||||
KGC4M23 | CAPS (HpaI) | F | GTGGTTGGGATCGGAATTG | 31699144 | 31699571 | This study |
R | TCACTACCGTTATATGTTCACGAAT | |||||
KGC4M30 | dCAPS (PstI) | F | CAATATAAATGTTGTTTTGTAAGCATTCTA | 31701502 | 31701604 | This study |
R | TCTTTACTAAATATATCGTTTTTCTTCTGC | |||||
IBA44 | STS | F | CTGGACGATATCCACGAACC | 31704500 | 31704669 | This study |
R | TGGGACCAGGTAGGACTTTG | |||||
KGC4M31 | dCAPS (HpaI) | F | GCCCTTAGTGTCATAGAGAGCATAA | 31705085 | 31705215 | This study |
R | TGTTTGATCATGACCTTGAGAGTT | |||||
KGC4M27 | STS | F | TGTGTGATACAATAACACCCAATG | 31709144 | 31709269 | This study |
R | ACCTAGTTAAATTCCAACGTCCAA | |||||
RM5473 | SSR | F | ACACGGAGATAAGACACGAG | 31710458 | 31710562 | McCouch et al. 2002 |
R | CGAGATTAACGTCGTCCTC | |||||
KGC4M18 | STS | F | TGCTTGTGAAAAAGAGGGAAT | 31716481 | 31716558 | This study |
R | GCTGTGAACAGACCATAGTATTGAA | |||||
RM3843 | SSR | F | ACCCTACTCCCAACAGTCCC | 31717543 | 31717696 | McCouch et al. 2002 |
R | GGGGTCGTACGCTCATGTC | |||||
S13174 | STS | F | CGGTTGCAGTGATCGAATTG | 31726177 | 31726399 | RGP |
R | CCAAATTCCCTGCCAACGAC | |||||
KGC4M52 | STS | F | GTTGTTGCGTATTCTTTGGATTC | 31810027 | 31810150 | This study |
R | CGCAATAATAATACAGGATAAACATAAAA | |||||
RM3836 | SSR | F | ACTGTGGAGTACAGGTCGGC | 31845478 | 31845603 | McCouch et al. 2002 |
R | GAAACGGAAACGAAACCCTC | |||||
C1016 | CAPS (HaeIII) | F | CACGCTCTTTCTATGTTTCC | 33352175 | 33352823 | RGP, modified in this study |
R | ATTACAACCACCCCTCCTC | |||||