Detailed information of SNP:
|
SNP ID:
sf1216871859(Gbrowse)
Chromosome: chr12 Position: 16871859 |
Major allele:
A
Minor allele: G Reference allele: G |
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 | 1237 | 73.16% | 26.84% |
| All Indica | 685 | 88.32% | 11.68% |
| All Japonica | 447 | 48.32% | 51.68% |
| Aus | 56 | 80.36% | 19.64% |
| Indica I | 308 | 87.01% | 12.99% |
| Indica II | 199 | 94.97% | 5.03% |
| Indica Intermediate | 178 | 83.15% | 16.85% |
| Temperate Japonica | 303 | 29.04% | 70.96% |
| Tropical Japonica | 89 | 97.75% | 2.25% |
| Japonica Intermediate | 55 | 74.55% | 25.45% |
| Group VI/Aromatic | 12 | 91.67% | 8.33% |
| Intermediate | 37 | 75.68% | 24.32% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf1216871859 | G->A | LOC_Os12g28560(LOC_Os12g28560.1) | INTRON |
| sf1216871859 | G->A | LOC_Os12g28560(LOC_Os12g28560.1) | SNPs that disrupt splice sites |