Detailed information of SNP:
|
SNP ID:
sf1209350917(Gbrowse)
Chromosome: chr12 Position: 9350917 |
Major allele:
T
Minor allele: C 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 T(major allele) | Frequency of C(minor allele) |
|---|---|---|---|
| All | 1419 | 67.86% | 32.14% |
| All Indica | 799 | 97.37% | 2.63% |
| All Japonica | 497 | 15.90% | 84.10% |
| Aus | 67 | 98.51% | 1.49% |
| Indica I | 375 | 99.20% | 0.80% |
| Indica II | 213 | 92.96% | 7.04% |
| Indica Intermediate | 211 | 98.58% | 1.42% |
| Temperate Japonica | 335 | 11.04% | 88.96% |
| Tropical Japonica | 94 | 25.53% | 74.47% |
| Japonica Intermediate | 68 | 26.47% | 73.53% |
| Group VI/Aromatic | 14 | 100.00% | 0.00% |
| Intermediate | 42 | 61.90% | 38.10% |
Allele Var Effect:
| SNP ID | Var | Gene | Effect/Location |
|---|---|---|---|
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.14) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.7) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.10) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.8) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.9) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.1) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.5) | SNPs that introduce initiation codons |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.15) | SNPs that introduce initiation codons |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.4) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.11) | INTRON |
| sf1209350917 | C->T | LOC_Os12g16350(LOC_Os12g16350.3) | INTRON |