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 mr1821 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
vg0306929218 sf0306928216 3 6929218 1.53E-08 2.13E-06
vg0423535582 sf0423350439 4 23535582 7.79E-08 NA
vg0142431590 sf0142430546 1 42431590 1.73E-07 2.54E-06
vg1117579217 sf1117113074 11 17579217 2.10E-06 NA
vg0500279211 sf0500279211 5 279211 NA 9.85E-07
vg0605690995 sf0605689996 6 5690995 NA 3.38E-06