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 mr1726 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
vg0919040682 sf0919040271 9 19040682 3.04E-08 NA
vg0619100973 sf0619099976 6 19100973 3.42E-08 NA
vg0712947265 sf0712946272 7 12947265 9.93E-08 NA
vg0712602607 sf0712601614 7 12602607 1.32E-06 NA
vg0620514657 sf0620513660 6 20514657 3.95E-06 NA