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 mr1762 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
vg0119710186 sf0119709141 1 19710186 9.46E-07 NA
vg1117147805 sf1116681657 11 17147805 1.32E-06 7.57E-06
vg1117133669 sf1116667521 11 17133669 2.26E-06 1.49E-06
vg0427385115 sf0427199979 4 27385115 NA 2.96E-06
vg0528097115 sf0528034470 5 28097115 NA 3.36E-06