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 mr1355 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
vg0103479251 sf0103478251 1 3479251 3.55E-07 3.56E-07
vg0217163155 sf0217157285 2 17163155 1.30E-06 1.30E-06
vg1126864587 sf1126392974 11 26864587 2.33E-06 2.33E-06
vg0304797638 sf0304796640 3 4797638 3.55E-06 3.55E-06
vg1123883692 sf1123417562 11 23883692 3.70E-06 3.71E-06
vg1008344509 sf1008273371 10 8344509 4.33E-06 4.33E-06