Detailed information of SNP:



SNP ID: sf0900042120(Gbrowse)

Chromosome: chr09

Position: 42120
Major allele: G

Minor allele: A

Reference allele: G

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)
All1419 61.73% 38.27%
All Indica799 36.67% 63.33%
All Japonica497 99.20% 0.80%
Aus67 70.15% 29.85%
Indica I375 44.27% 55.73%
Indica II213 38.03% 61.97%
Indica Intermediate211 21.80% 78.20%
Temperate Japonica335 98.81% 1.19%
Tropical Japonica94 100.00% 0.00%
Japonica Intermediate68 100.00% 0.00%
Group VI/Aromatic14 85.71% 14.29%
Intermediate42 73.81% 26.19%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0900042120 G->A LOC_Os09g01006(LOC_Os09g01006.1) Non-Synonymous SNP