Phenotype and GWAS Information:

Agronomic Traits

Note: All the agronomic trait is from the article Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection.

Metabolic Traits

Note: All the metabolic trait is from the article Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Some metabolics have two replications, the second replication is end with '_2', like 'mr1002_2'.

Search Results:

The detailed information about mr1465 can be find at here.

GWAS Results:

Note: If the P-value of Linear Regression (LR) or Linear Mixed Model (LMM) ≤ 1e-5 or the rank ≤ 20000, the results are saved. Only the LMM results are plotted below.

Significant Candidate Loci (Lead SNP):

Variation IDVariation ID V6ChromosomePositionLR P-value LMM P-value
vg1119255268 sf1118788956 11 19255268 4.41E-08 4.41E-08
vg1116473187 sf1116008064 11 16473187 3.33E-07 3.33E-07
vg0141992653 sf0141991610 1 41992653 8.07E-07 8.07E-07
vg0421068754 sf0420896809 4 21068754 1.47E-06 1.47E-06
vg1111043318 sf1111037635 11 11043318 3.11E-06 3.11E-06