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 mr1385 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
vg0225285799 sf0225279930 2 25285799 2.24E-06 2.24E-06
vg1000744795 sf1000743771 10 744795 2.35E-06 2.35E-06
vg1001912628 sf1001911605 10 1912628 2.42E-06 2.42E-06
vg1002596466 sf1002595443 10 2596466 3.40E-06 3.40E-06
vg1002595660 sf1002594637 10 2595660 3.43E-06 3.43E-06