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 mr1184 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
vg0216379915 sf0216374045 2 16379915 7.72E-07 7.72E-07
vg0501597981 sf0501597965 5 1597981 9.67E-07 9.67E-07
vg0816083415 sf0816080701 8 16083415 1.12E-06 1.12E-06
vg0219809349 sf0219803481 2 19809349 4.07E-06 4.07E-06
vg0922400269 sf0922399788 9 22400269 4.38E-06 4.38E-06