Data detail | |
 Data name | Information of the markers in each chromosome |
| DOI | 10.18908/lsdba.nbdc00318-05-001 |
| Description of data contents | Information of the STS and CAPS markers in each chromosome. |
| Data file | |
| Simple search URL | http://togodb.biosciencedbc.jp/togodb/view/rgp_caps_main#en |
| Data acquisition method |
STS markers : The 161 STS markers have been developed using clone-specific sequences (3'end) designed from the EST sequence derived from several cDNA libraries (Yamamoto et al. 1997 Plant Mol Biol 35: 135-144).
CAPS markers : We have developed 171 CAPS markers including 6 derived CAPS (dCAPS) markers (Konieczny and Ausbel 1993 Plant J. 4: 403-410, Neff et al. 1998 Plant J. 14: 387-392) using the information derived from a high-density RFLP linkage map (A HIGH-DENSITY RICE GENETIC MAP, Harushima et al. 1998, The Latest High-Density Rice Genetic Map, Including 3267 Markers, Rice Genome Research Program 2000).
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| Data analysis method |
STS markers : The chromosomal location of each marker has been identified by EST mapping (Wu et al. 2002 Plant Cell 14: 525--535) using a YAC-based physical map of rice. For all polymorphic markers, we have confirmed the chromosomal location by linkage analysis using 46 randomly selected BILs (Lin et al. 1998 Theor Appl Genet 96: 997-1003). Amplification was performed in GeneAmp PCR System 9600 (Perkin-Elmer).
CAPS markers : Using 5' and 3' sequence data for the clones used for RFLP linkage analysis, we designed unique primer pairs for the specific amplification of genome. Then, restriction digestion was carried out to detect polymorphism. In order to confirm the chromosomal location of CAPS markers, linkage analysis was performed using 14 randomly selected F2 plants (Harushima et al. 1998 Genetices 148: 479-494). Amplification was performed in GeneAmp PCR System 9600 (Perkin-Elmer).
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| Number of data entries | 527 entries |
