Detailed information of SNP:



SNP ID: sf1209699438(Gbrowse)

Chromosome: chr12

Position: 9699438
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.


PopulationsPopulation SizeFrequency of T(major allele)Frequency of C(minor allele)
All1401 67.09% 32.91%
All Indica786 93.89% 6.11%
All Japonica494 20.65% 79.35%
Aus66 96.97% 3.03%
Indica I369 95.93% 4.07%
Indica II212 90.09% 9.91%
Indica Intermediate205 94.15% 5.85%
Temperate Japonica332 11.45% 88.55%
Tropical Japonica94 34.04% 65.96%
Japonica Intermediate68 47.06% 52.94%
Group VI/Aromatic14 92.86% 7.14%
Intermediate41 56.10% 43.90%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf1209699438 C->T LOC_Os12g16920(LOC_Os12g16920.1) Non-Synonymous SNP