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 mr1492 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
vg0805826839 sf0805825842 8 5826839 8.74E-07 2.09E-06
vg0528484961 sf0528422316 5 28484961 2.11E-06 NA
vg0127428591 sf0127427547 1 27428591 2.56E-06 1.81E-06
vg0819984645 sf0819981932 8 19984645 2.76E-06 NA
vg0114132106 sf0114131080 1 14132106 9.20E-06 2.40E-06