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 mr1581 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
vg0319386807 sf0319385318 3 19386807 6.14E-07 6.14E-07
vg0900686640 sf0900685640 9 686640 1.87E-06 1.87E-06
vg1109604230 sf1109598807 11 9604230 2.30E-06 2.30E-06
vg0803235163 sf0803234166 8 3235163 4.14E-06 4.14E-06
vg1120863964 sf1120397867 11 20863964 4.98E-06 4.98E-06
vg0517398477 sf0517338120 5 17398477 7.23E-06 7.23E-06