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 mr1357 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
vg1122514350 sf1122048221 11 22514350 6.96E-07 6.97E-07
vg0402104951 sf0402100545 4 2104951 3.07E-06 3.07E-06
vg0818230180 sf0818227467 8 18230180 3.27E-06 3.27E-06
vg0320733462 sf0320731972 3 20733462 4.23E-06 4.24E-06
vg0434804978 sf0434619869 4 34804978 4.47E-06 4.47E-06