Detailed information of SNP:



SNP ID: sf0106989017(Gbrowse)

Chromosome: chr01

Position: 6989017
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)
All1419 95.28% 4.72%
All Indica799 99.87% 0.13%
All Japonica497 87.32% 12.68%
Aus67 100.00% 0.00%
Indica I375 100.00% 0.00%
Indica II213 99.53% 0.47%
Indica Intermediate211 100.00% 0.00%
Temperate Japonica335 99.40% 0.60%
Tropical Japonica94 41.49% 58.51%
Japonica Intermediate68 91.18% 8.82%
Group VI/Aromatic14 100.00% 0.00%
Intermediate42 92.86% 7.14%

Allele Var Effect:


SNP ID Var Gene Effect/Location
sf0106989017 C->T LOC_Os01g12680(LOC_Os01g12680.4) INTRON
sf0106989017 C->T LOC_Os01g12680(LOC_Os01g12680.2) INTRON