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 mr1198 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
vg0317012377 sf0317011251 3 17012377 1.89E-06 1.89E-06
vg0314967098 sf0314965745 3 14967098 3.21E-06 3.21E-06
vg0224844906 sf0224839037 2 24844906 3.33E-06 3.33E-06
vg0224854719 sf0224848850 2 24854719 3.62E-06 3.62E-06
vg1002090827 sf1002089804 10 2090827 3.94E-06 3.94E-06
vg0314888685 sf0314887332 3 14888685 5.98E-06 5.98E-06