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 mr1734 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
vg0615110843 sf0615109844 6 15110843 3.01E-08 7.93E-06
vg0619806827 sf0619805830 6 19806827 3.19E-08 NA
vg0614719643 sf0614718644 6 14719643 8.38E-08 9.28E-06
vg1002941120 sf1002940097 10 2941120 1.40E-07 1.25E-06
vg1002940979 sf1002939956 10 2940979 3.72E-07 1.25E-06
vg0617032388 sf0617031391 6 17032388 4.84E-06 NA
vg0224380737 sf0224374868 2 24380737 9.95E-06 NA