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 mr1592 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
vg0810864582 sf0810863587 8 10864582 1.21E-07 1.21E-07
vg0819654266 sf0819651553 8 19654266 1.11E-06 1.11E-06
vg1215881109 sf1215878405 12 15881109 2.85E-06 2.85E-06
vg0813654729 sf0813652014 8 13654729 4.28E-06 4.28E-06
vg0725508857 sf0725507863 7 25508857 4.40E-06 4.40E-06