Detailed information of SNP:



SNP ID: sf0406813682(Gbrowse)

Chromosome: chr04

Position: 6813682
Major allele: T

Minor allele: C

Reference allele: T

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)
All1415 50.74% 49.26%
All Indica797 23.34% 76.66%
All Japonica497 99.80% 0.20%
Aus66 9.09% 90.91%
Indica I374 14.44% 85.56%
Indica II212 21.23% 78.77%
Indica Intermediate211 41.23% 58.77%
Temperate Japonica335 99.70% 0.30%
Tropical Japonica94 100.00% 0.00%
Japonica Intermediate68 100.00% 0.00%
Group VI/Aromatic13 15.38% 84.62%
Intermediate42 66.67% 33.33%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0406813682 T->C LOC_Os04g12360(LOC_Os04g12360.1) Synonymous