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 mr1833 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
vg0222381389 sf0222375520 2 22381389 6.99E-07 2.18E-06
vg0407001583 sf0406996854 4 7001583 1.05E-06 4.69E-06
vg0329230827 sf0329223879 3 29230827 8.05E-06 2.19E-06
vg0407024746 sf0407020017 4 7024746 9.98E-06 1.49E-06
vg0212831375 sf0212831371 2 12831375 NA 2.53E-06