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 mr1232 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
vg0221209437 sf0221203569 2 21209437 2.68E-07 2.68E-07
vg1127864409 sf1127392795 11 27864409 4.78E-07 4.78E-07
vg0630943433 sf0630942435 6 30943433 1.80E-06 1.81E-06
vg1119516268 sf1119049956 11 19516268 3.67E-06 3.67E-06
vg0800482599 sf0800481599 8 482599 4.91E-06 4.91E-06
vg0314419391 sf0314418080 3 14419391 5.00E-06 5.00E-06