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 mr1526 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
vg0234921802 sf0234915933 2 34921802 2.04E-11 3.51E-06
vg1115345814 sf1114882128 11 15345814 5.43E-11 NA
vg0204782959 sf0204782956 2 4782959 1.01E-10 NA
vg0331822672 sf0331815549 3 31822672 1.27E-10 NA
vg0133324434 sf0133323390 1 33324434 1.43E-10 NA