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 mr1168 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
vg1114423825 sf1113960142 11 14423825 3.77E-07 3.77E-07
vg0316513657 sf0316512302 3 16513657 1.03E-06 1.03E-06
vg1224026817 sf1223993270 12 24026817 1.61E-06 1.62E-06
vg1000933071 sf1000932047 10 933071 2.46E-06 2.46E-06
vg1000283563 sf1000282563 10 283563 3.34E-06 3.34E-06
vg0620514657 sf0620513660 6 20514657 3.93E-06 3.93E-06
vg0723265983 sf0723264990 7 23265983 4.37E-06 4.37E-06