Detailed information of SNP:
|
SNP ID:
sf1200439277(Gbrowse)
Chromosome: chr12 Position: 439277 |
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 | 1407 | 59.42% | 40.58% |
| All Indica | 796 | 71.61% | 28.39% |
| All Japonica | 488 | 45.29% | 54.71% |
| Aus | 67 | 32.84% | 67.16% |
| Indica I | 373 | 57.64% | 42.36% |
| Indica II | 212 | 82.08% | 17.92% |
| Indica Intermediate | 211 | 85.78% | 14.22% |
| Temperate Japonica | 326 | 59.51% | 40.49% |
| Tropical Japonica | 94 | 8.51% | 91.49% |
| Japonica Intermediate | 68 | 27.94% | 72.06% |
| Group VI/Aromatic | 14 | 7.14% | 92.86% |
| Intermediate | 42 | 52.38% | 47.62% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf1200439277 | C->T | LOC_Os12g01740(LOC_Os12g01740.2) | INTRON |
| sf1200439277 | C->T | LOC_Os12g01740(LOC_Os12g01740.1) | INTRON |