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 mr1088 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
vg0719057867 sf0719056874 7 19057867 2.80E-14 5.20E-12
vg0719131362 sf0719130369 7 19131362 5.03E-14 3.13E-12
vg0719056561 sf0719055568 7 19056561 8.11E-14 5.51E-12
vg0315357234 sf0315355881 3 15357234 6.74E-10 1.36E-07
vg1214801425 sf1214798766 12 14801425 8.68E-08 NA