Detailed information of SNP:
|
SNP ID:
sf0400400935(Gbrowse)
Chromosome: chr04 Position: 400935 |
Major allele:
C
Minor allele: T Reference allele: C |
Allele Frequencies:
NOTE: The detailed information of the classification of populations can be found in the "Notes and Data Evaluation" page.
| Populations | Population Size | Frequency of C(major allele) | Frequency of T(minor allele) |
|---|---|---|---|
| All | 1418 | 79.90% | 20.10% |
| All Indica | 798 | 65.29% | 34.71% |
| All Japonica | 497 | 99.80% | 0.20% |
| Aus | 67 | 100.00% | 0.00% |
| Indica I | 375 | 87.73% | 12.27% |
| Indica II | 212 | 33.96% | 66.04% |
| Indica Intermediate | 211 | 56.87% | 43.13% |
| Temperate Japonica | 335 | 99.70% | 0.30% |
| Tropical Japonica | 94 | 100.00% | 0.00% |
| Japonica Intermediate | 68 | 100.00% | 0.00% |
| Group VI/Aromatic | 14 | 92.86% | 7.14% |
| Intermediate | 42 | 85.71% | 14.29% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf0400400935 | C->T | LOC_Os04g01600(LOC_Os04g01600.2) | INTRON |
| sf0400400935 | C->T | LOC_Os04g01600(LOC_Os04g01600.1) | INTRON |