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 mr1910 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
vg0224673406 sf0224667537 2 24673406 4.97E-09 1.60E-07
vg0721444375 sf0721443382 7 21444375 7.33E-09 1.21E-06
vg0623330404 sf0623329407 6 23330404 8.75E-09 6.97E-07
vg0623349634 sf0623348637 6 23349634 9.07E-09 6.56E-07
vg0412755389 sf0412746099 4 12755389 2.57E-08 4.13E-07
vg0627171237 sf0627170240 6 27171237 5.97E-08 3.62E-06
vg0307401503 sf0307400501 3 7401503 2.39E-07 4.06E-06