Detailed information of SNP:



SNP ID: sf0506629739(Gbrowse)

Chromosome: chr05

Position: 6629739
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)
All1385 89.96% 10.04%
All Indica785 99.87% 0.13%
All Japonica478 72.38% 27.62%
Aus67 100.00% 0.00%
Indica I366 100.00% 0.00%
Indica II212 99.53% 0.47%
Indica Intermediate207 100.00% 0.00%
Temperate Japonica318 60.69% 39.31%
Tropical Japonica94 100.00% 0.00%
Japonica Intermediate66 89.39% 10.61%
Group VI/Aromatic14 100.00% 0.00%
Intermediate41 85.37% 14.63%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0506629739 T->C LOC_Os05g11690(LOC_Os05g11690.1) INTRON