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 mr1206 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
vg0614627605 sf0614626606 6 14627605 7.73E-07 7.74E-07
vg0114245822 sf0114244796 1 14245822 1.86E-06 5.56E-06
vg0109929600 sf0109928576 1 9929600 2.12E-06 1.35E-06
vg0113572680 sf0113571654 1 13572680 NA 1.60E-06
vg0708597974 sf0708596979 7 8597974 NA 3.85E-06