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 mr1367 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
vg0607445929 sf0607444930 6 7445929 7.14E-07 7.13E-07
vg0419224532 sf0419052570 4 19224532 7.21E-07 7.20E-07
vg0803945806 sf0803944809 8 3945806 9.49E-07 9.50E-07
vg1215652345 sf1215649642 12 15652345 1.34E-06 1.34E-06
vg0601563713 sf0601562714 6 1563713 2.31E-06 2.31E-06