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 mr1810 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
vg1117584893 sf1117118750 11 17584893 2.03E-07 2.03E-07
vg0623833223 sf0623832226 6 23833223 6.41E-07 6.41E-07
vg0140493271 sf0140492228 1 40493271 2.86E-06 2.86E-06
vg0626887934 sf0626886937 6 26887934 3.51E-06 3.51E-06
vg1207781630 sf1207779036 12 7781630 5.40E-06 5.40E-06