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 mr1837 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
vg0431655631 sf0431470524 4 31655631 2.32E-07 1.12E-06
vg1106375766 sf1106371518 11 6375766 4.23E-07 1.79E-07
vg0820974361 sf0820971648 8 20974361 1.00E-06 3.22E-06
vg0103392356 sf0103391356 1 3392356 1.26E-06 3.31E-06
vg0103381628 sf0103380628 1 3381628 1.58E-06 3.40E-06
vg1016429449 sf1016358223 10 16429449 7.43E-06 1.86E-06