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 mr1952 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
vg1017240834 sf1017169607 10 17240834 5.73E-07 1.78E-06
vg1221032304 sf1220998854 12 21032304 1.07E-06 2.94E-06
vg1017311627 sf1017240400 10 17311627 1.15E-06 4.71E-06
vg0404247363 sf0404242970 4 4247363 3.34E-06 1.25E-06
vg0113685893 sf0113684867 1 13685893 3.62E-06 NA