Detailed information of SNP:



SNP ID: sf0902523873(Gbrowse)

Chromosome: chr09

Position: 2523873
Major allele: G

Minor allele: A

Reference allele: A

Allele Frequencies:


NOTE: The detailed information of the classification of populations can be found in the "Notes and Data Evaluation" page.


PopulationsPopulation SizeFrequency of G(major allele)Frequency of A(minor allele)
All1418 68.41% 31.59%
All Indica798 95.36% 4.64%
All Japonica497 21.13% 78.87%
Aus67 89.55% 10.45%
Indica I375 96.00% 4.00%
Indica II212 95.75% 4.25%
Indica Intermediate211 93.84% 6.16%
Temperate Japonica335 2.09% 97.91%
Tropical Japonica94 75.53% 24.47%
Japonica Intermediate68 39.71% 60.29%
Group VI/Aromatic14 85.71% 14.29%
Intermediate42 76.19% 23.81%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0902523873 A->G LOC_Os09g04740(LOC_Os09g04740.1) Synonymous