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 mr1687 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
vg0406853125 sf0406848570 4 6853125 4.43E-08 4.62E-08
vg0407142823 sf0407138093 4 7142823 NA 4.65E-07
vg0324614045 sf0324612124 3 24614045 NA 2.45E-06
vg0907795079 sf0907794079 9 7795079 NA 3.59E-06
vg0907838282 sf0907837282 9 7838282 NA 9.55E-06