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 mr1934 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
vg0124458449 sf0124457405 1 24458449 3.94E-07 3.94E-07
vg0921095515 sf0921095034 9 21095515 4.09E-07 4.09E-07
vg0431457863 sf0431272761 4 31457863 1.26E-06 1.26E-06
vg0916081853 sf0916080852 9 16081853 1.78E-06 1.78E-06
vg0122493440 sf0122492395 1 22493440 2.68E-06 2.68E-06
vg0401647058 sf0401642607 4 1647058 2.74E-06 2.74E-06
vg1221634445 sf1221600992 12 21634445 7.77E-06 7.76E-06