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 mr1444 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
vg0807421509 sf0807420514 8 7421509 8.00E-07 8.00E-07
vg0223736839 sf0223730970 2 23736839 1.79E-06 1.79E-06
vg0721165825 sf0721164832 7 21165825 1.96E-06 1.96E-06
vg0907725198 sf0907724198 9 7725198 3.13E-06 3.13E-06
vg0223668778 sf0223662909 2 23668778 8.37E-06 8.38E-06