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 mr1738 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
vg0620348476 sf0620347479 6 20348476 6.35E-08 6.35E-08
vg1222433809 sf1222400248 12 22433809 3.77E-07 3.77E-07
vg0510889800 sf0510889729 5 10889800 9.89E-07 9.89E-07
vg0911066866 sf0911065865 9 11066866 2.14E-06 2.14E-06
vg0501597771 sf0501597755 5 1597771 2.88E-06 2.88E-06
vg1222410674 sf1222377113 12 22410674 4.45E-06 4.45E-06