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 mr1186 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
vg0221844814 sf0221838945 2 21844814 1.67E-07 1.67E-07
vg0221843984 sf0221838115 2 21843984 1.75E-07 1.75E-07
vg0500807732 sf0500807714 5 807732 4.06E-07 4.06E-07
vg0232486002 sf0232480133 2 32486002 1.16E-06 1.16E-06
vg0220941584 sf0220935716 2 20941584 2.17E-06 2.17E-06
vg0235865062 sf0235859193 2 35865062 3.45E-06 3.45E-06