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 mr1345 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
vg1208634025 sf1208631432 12 8634025 3.59E-07 2.37E-06
vg1215170315 sf1215167651 12 15170315 5.22E-06 NA
vg0210647689 sf0210647687 2 10647689 7.93E-06 NA
vg0518984986 sf0518922470 5 18984986 NA 1.26E-07
vg1214636770 sf1214634110 12 14636770 NA 5.51E-06