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 mr1255 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
vg0222209567 sf0222203698 2 22209567 1.51E-07 1.51E-07
vg0519889030 sf0519826506 5 19889030 2.65E-07 2.65E-07
vg0215273764 sf0215267894 2 15273764 1.14E-06 1.14E-06
vg0217169402 sf0217163532 2 17169402 1.37E-06 1.37E-06
vg0217093019 sf0217087149 2 17093019 3.44E-06 3.44E-06
vg1115575642 sf1115111954 11 15575642 4.73E-06 4.73E-06