Detailed information of SNP:



SNP ID: sf1125028161(Gbrowse)

Chromosome: chr11

Position: 25028161
Major allele: C

Minor allele: T

Reference allele: C

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)
All1418 76.52% 23.48%
All Indica798 66.92% 33.08%
All Japonica497 90.54% 9.46%
Aus67 91.04% 8.96%
Indica I374 84.22% 15.78%
Indica II213 74.18% 25.82%
Indica Intermediate211 28.91% 71.09%
Temperate Japonica335 97.91% 2.09%
Tropical Japonica94 60.64% 39.36%
Japonica Intermediate68 95.59% 4.41%
Group VI/Aromatic14 100.00% 0.00%
Intermediate42 61.90% 38.10%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf1125028161 C->T LOC_Os11g42350(LOC_Os11g42350.3) Non-Synonymous SNP
sf1125028161 C->T LOC_Os11g42350(LOC_Os11g42350.2) Non-Synonymous SNP
sf1125028161 C->T LOC_Os11g42350(LOC_Os11g42350.1) Non-Synonymous SNP