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 mr1497 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
vg1207573922 sf1207571327 12 7573922 7.95E-07 7.95E-07
vg0501424855 sf0501424839 5 1424855 1.01E-06 1.01E-06
vg1119958713 sf1119492636 11 19958713 1.29E-06 1.29E-06
vg0327981236 sf0327974290 3 27981236 3.07E-06 3.07E-06
vg0224869035 sf0224863166 2 24869035 9.27E-06 9.27E-06