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 mr1314 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
vg0528341320 sf0528278675 5 28341320 7.52E-07 7.54E-07
vg0431750090 sf0431564982 4 31750090 1.40E-06 1.40E-06
vg0431515534 sf0431330433 4 31515534 2.33E-06 2.32E-06
vg1117103676 sf1116637528 11 17103676 3.28E-06 3.27E-06
vg0527886190 sf0527823547 5 27886190 4.68E-06 4.69E-06