Detailed information of SNP:



SNP ID: sf0527976654(Gbrowse)

Chromosome: chr05

Position: 27976654
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)
All1398 84.91% 15.09%
All Indica799 99.37% 0.63%
All Japonica476 59.03% 40.97%
Aus67 100.00% 0.00%
Indica I375 100.00% 0.00%
Indica II213 97.65% 2.35%
Indica Intermediate211 100.00% 0.00%
Temperate Japonica315 41.59% 58.41%
Tropical Japonica94 100.00% 0.00%
Japonica Intermediate67 83.58% 16.42%
Group VI/Aromatic14 42.86% 57.14%
Intermediate42 92.86% 7.14%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0527976654 T->C LOC_Os05g48870(LOC_Os05g48870.9) UTR_3_PRIME
sf0527976654 T->C LOC_Os05g48870(LOC_Os05g48870.8) UTR_3_PRIME
sf0527976654 T->C LOC_Os05g48870(LOC_Os05g48870.7) UTR_3_PRIME
sf0527976654 T->C LOC_Os05g48870(LOC_Os05g48870.5) UTR_3_PRIME
sf0527976654 T->C LOC_Os05g48870(LOC_Os05g48870.6) UTR_3_PRIME
sf0527976654 T->C LOC_Os05g48870(LOC_Os05g48870.1) UTR_3_PRIME