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 mr1927 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
vg0217093619 sf0217087749 2 17093619 1.68E-19 4.92E-16
vg0217411971 sf0217406101 2 17411971 2.11E-10 3.18E-08
vg1108225523 sf1108220133 11 8225523 6.37E-10 1.16E-06
vg1128516527 sf1127993306 11 28516527 9.94E-10 1.05E-06
vg1005364284 sf1005380821 10 5364284 7.15E-08 NA