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 mr1786 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
vg1218112515 sf1218083951 12 18112515 1.72E-08 3.65E-06
vg0410451060 sf0410441759 4 10451060 3.30E-08 NA
vg1218074718 sf1218046154 12 18074718 5.96E-08 2.15E-06
vg0329646866 sf0329639906 3 29646866 1.04E-06 3.23E-06
vg0920193418 sf0920192937 9 20193418 5.56E-06 NA
vg0134213880 sf0134212836 1 34213880 NA 3.52E-06