Detailed information of SNP:
|
SNP ID:
sf0428905407(Gbrowse)
Chromosome: chr04 Position: 28905407 |
Major allele:
A
Minor allele: G 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 G(minor allele) |
|---|---|---|---|
| All | 1419 | 82.80% | 17.20% |
| All Indica | 799 | 96.25% | 3.75% |
| All Japonica | 497 | 66.60% | 33.40% |
| Aus | 67 | 53.73% | 46.27% |
| Indica I | 375 | 98.40% | 1.60% |
| Indica II | 213 | 97.65% | 2.35% |
| Indica Intermediate | 211 | 91.00% | 9.00% |
| Temperate Japonica | 335 | 74.33% | 25.67% |
| Tropical Japonica | 94 | 64.89% | 35.11% |
| Japonica Intermediate | 68 | 30.88% | 69.12% |
| Group VI/Aromatic | 14 | 42.86% | 57.14% |
| Intermediate | 42 | 78.57% | 21.43% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf0428905407 | A->G | LOC_Os04g48770(LOC_Os04g48770.1) | INTRON |
| sf0428905407 | A->G | LOC_Os04g48770(LOC_Os04g48770.2) | UTR_5_PRIME |