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 mr1487 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
vg1104344322 sf1104340224 11 4344322 1.45E-07 1.45E-07
vg0224495790 sf0224489921 2 24495790 1.51E-06 1.51E-06
vg0336243482 sf0336236408 3 36243482 2.04E-06 2.04E-06
vg1125143652 sf1124677492 11 25143652 2.38E-06 2.38E-06
vg0501520983 sf0501520967 5 1520983 3.95E-06 3.95E-06