Detailed information of SNP:
|
SNP ID:
sf1204345939(Gbrowse)
Chromosome: chr12 Position: 4345939 |
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 | 1351 | 59.22% | 40.78% |
| All Indica | 745 | 33.42% | 66.58% |
| All Japonica | 489 | 96.93% | 3.07% |
| Aus | 63 | 73.02% | 26.98% |
| Indica I | 350 | 39.14% | 60.86% |
| Indica II | 201 | 26.87% | 73.13% |
| Indica Intermediate | 194 | 29.90% | 70.10% |
| Temperate Japonica | 331 | 99.09% | 0.91% |
| Tropical Japonica | 92 | 92.39% | 7.61% |
| Japonica Intermediate | 66 | 92.42% | 7.58% |
| Group VI/Aromatic | 13 | 46.15% | 53.85% |
| Intermediate | 41 | 60.98% | 39.02% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf1204345939 | A->G | LOC_Os12g08564(LOC_Os12g08564.4) | INTRON |
| sf1204345939 | A->G | LOC_Os12g08564(LOC_Os12g08564.1) | INTRON |
| sf1204345939 | A->G | LOC_Os12g08564(LOC_Os12g08564.3) | INTRON |