Detailed information of SNP:
|
SNP ID:
sf0142243143(Gbrowse)
Chromosome: chr01 Position: 42243143 |
Major allele:
A
Minor allele: T Reference allele: T |
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 | 1419 | 75.33% | 24.67% |
| All Indica | 799 | 98.62% | 1.38% |
| All Japonica | 497 | 39.24% | 60.76% |
| Aus | 67 | 52.24% | 47.76% |
| Indica I | 375 | 98.67% | 1.33% |
| Indica II | 213 | 98.59% | 1.41% |
| Indica Intermediate | 211 | 98.58% | 1.42% |
| Temperate Japonica | 335 | 13.13% | 86.87% |
| Tropical Japonica | 94 | 100.00% | 0.00% |
| Japonica Intermediate | 68 | 83.82% | 16.18% |
| Group VI/Aromatic | 14 | 92.86% | 7.14% |
| Intermediate | 42 | 90.48% | 9.52% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf0142243143 | T->A | LOC_Os01g72820(LOC_Os01g72820.6) | UTR_3_PRIME |
| sf0142243143 | T->A | LOC_Os01g72820(LOC_Os01g72820.3) | INTRON |
| sf0142243143 | T->A | LOC_Os01g72820(LOC_Os01g72820.4) | UTR_3_PRIME |
| sf0142243143 | T->A | LOC_Os01g72820(LOC_Os01g72820.5) | INTRON |
| sf0142243143 | T->A | LOC_Os01g72820(LOC_Os01g72820.2) | UTR_3_PRIME |
| sf0142243143 | T->A | LOC_Os01g72820(LOC_Os01g72820.1) | UTR_3_PRIME |