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 mr1827 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
vg1112896508 sf1112432829 11 12896508 2.24E-07 1.46E-06
vg0315246434 sf0315245081 3 15246434 1.58E-06 7.78E-07
vg0816119916 sf0816117202 8 16119916 1.84E-06 7.82E-07
vg1109631523 sf1109626100 11 9631523 2.63E-06 1.24E-06
vg0301739686 sf0301738682 3 1739686 6.58E-06 NA