Detailed information of SNP:
|
SNP ID:
sf0401987877(Gbrowse)
Chromosome: chr04 Position: 1987877 |
Major allele:
A
Minor allele: T Reference allele: A |
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 A(major allele) | Frequency of T(minor allele) |
|---|---|---|---|
| All | 1415 | 54.20% | 45.80% |
| All Indica | 798 | 61.28% | 38.72% |
| All Japonica | 495 | 44.65% | 55.35% |
| Aus | 67 | 50.75% | 49.25% |
| Indica I | 375 | 73.07% | 26.93% |
| Indica II | 213 | 60.56% | 39.44% |
| Indica Intermediate | 210 | 40.95% | 59.05% |
| Temperate Japonica | 333 | 50.75% | 49.25% |
| Tropical Japonica | 94 | 36.17% | 63.83% |
| Japonica Intermediate | 68 | 26.47% | 73.53% |
| Group VI/Aromatic | 14 | 35.71% | 64.29% |
| Intermediate | 41 | 43.90% | 56.10% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf0401987877 | A->T | LOC_Os04g04254(LOC_Os04g04254.1) | INTRON |
| sf0401987877 | A->T | LOC_Os04g04254(LOC_Os04g04254.2) | INTRON |