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 mr1811 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
vg1117584893 sf1117118750 11 17584893 1.09E-07 1.09E-07
vg0432922944 sf0432737831 4 32922944 5.57E-07 5.58E-07
vg0125127326 sf0125126282 1 25127326 7.28E-07 7.28E-07
vg0800670658 sf0800669658 8 670658 9.63E-07 9.63E-07
vg1009638506 sf1009567327 10 9638506 1.18E-06 1.18E-06
vg0800097169 sf0800096169 8 97169 2.20E-06 2.20E-06