Detailed information of SNP:



SNP ID: sf0904235778(Gbrowse)

Chromosome: chr09

Position: 4235778
Major allele: C

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.


PopulationsPopulation SizeFrequency of C(major allele)Frequency of T(minor allele)
All1393 66.69% 33.31%
All Indica791 91.78% 8.22%
All Japonica482 19.71% 80.29%
Aus67 100.00% 0.00%
Indica I375 90.13% 9.87%
Indica II210 96.67% 3.33%
Indica Intermediate206 89.81% 10.19%
Temperate Japonica322 25.16% 74.84%
Tropical Japonica93 3.23% 96.77%
Japonica Intermediate67 16.42% 83.58%
Group VI/Aromatic14 85.71% 14.29%
Intermediate39 74.36% 25.64%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0904235778 T->C LOC_Os09g08180(LOC_Os09g08180.1) Non-Synonymous SNP