Detailed information of SNP:
|
SNP ID:
sf0406509406(Gbrowse)
Chromosome: chr04 Position: 6509406 |
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 | 68.27% | 31.73% |
| All Indica | 798 | 46.99% | 53.01% |
| All Japonica | 497 | 95.17% | 4.83% |
| Aus | 67 | 100.00% | 0.00% |
| Indica I | 375 | 18.93% | 81.07% |
| Indica II | 212 | 72.17% | 27.83% |
| Indica Intermediate | 211 | 71.56% | 28.44% |
| Temperate Japonica | 335 | 94.03% | 5.97% |
| Tropical Japonica | 94 | 98.94% | 1.06% |
| Japonica Intermediate | 68 | 95.59% | 4.41% |
| Group VI/Aromatic | 14 | 100.00% | 0.00% |
| Intermediate | 42 | 92.86% | 7.14% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf0406509406 | C->T | LOC_Os04g11880(LOC_Os04g11880.1) | INTRON |
| sf0406509406 | C->T | LOC_Os04g11880(LOC_Os04g11880.3) | INTRON |
| sf0406509406 | C->T | LOC_Os04g11880(LOC_Os04g11880.2) | INTRON |