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 mr1814 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
vg0703793591 sf0703792592 7 3793591 2.94E-06 2.95E-06
vg0316611015 sf0316609660 3 16611015 3.96E-06 3.98E-06
vg1214093168 sf1214090508 12 14093168 3.99E-06 4.00E-06
vg0205764161 sf0205764161 2 5764161 4.88E-06 4.90E-06
vg1214079718 sf1214077058 12 14079718 4.90E-06 4.92E-06