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 mr1467 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
vg0819603039 sf0819600326 8 19603039 1.21E-09 1.07E-08
vg0717084739 sf0717083746 7 17084739 2.38E-07 4.71E-06
vg1012377106 sf1012305921 10 12377106 6.97E-07 3.97E-06
vg0820873126 sf0820870413 8 20873126 1.37E-06 2.01E-06
vg0127428591 sf0127427547 1 27428591 3.01E-06 2.15E-06