Detailed information of SNP:



SNP ID: sf0400673564(Gbrowse)

Chromosome: chr04

Position: 673564
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)
All1419 76.60% 23.40%
All Indica799 99.50% 0.50%
All Japonica497 36.02% 63.98%
Aus67 98.51% 1.49%
Indica I375 99.20% 0.80%
Indica II213 99.53% 0.47%
Indica Intermediate211 100.00% 0.00%
Temperate Japonica335 16.12% 83.88%
Tropical Japonica94 87.23% 12.77%
Japonica Intermediate68 63.24% 36.76%
Group VI/Aromatic14 100.00% 0.00%
Intermediate42 78.57% 21.43%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0400673564 T->C LOC_Os04g02090(LOC_Os04g02090.1) Non-Synonymous SNP