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 mr1345 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
vg0820948192 sf0820945479 8 20948192 1.45E-07 1.32E-06
vg1214822308 sf1214819649 12 14822308 2.16E-07 4.19E-06
vg0229918162 sf0229912293 2 29918162 4.54E-07 6.46E-06
vg1115066964 sf1114603278 11 15066964 4.69E-06 2.94E-06
vg1125773021 sf1125306860 11 25773021 6.84E-06 NA