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 mr1915 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
vg0115183271 sf0115182245 1 15183271 8.70E-07 2.66E-06
vg1214822308 sf1214819649 12 14822308 1.19E-06 NA
vg0525534836 sf0525472257 5 25534836 1.33E-06 4.00E-06
vg0820991239 sf0820988526 8 20991239 2.37E-06 8.64E-06
vg1115216696 sf1114753010 11 15216696 7.05E-06 4.89E-06