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 mr1255 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
vg0432358320 sf0432173210 4 32358320 2.25E-08 3.52E-07
vg0810788386 sf0810787391 8 10788386 7.51E-08 1.33E-07
vg0815283554 sf0815280840 8 15283554 5.17E-07 5.90E-07
vg1110131424 sf1110126001 11 10131424 6.25E-07 1.39E-06
vg0819654266 sf0819651553 8 19654266 8.47E-07 1.29E-06
vg0128574943 sf0128573898 1 28574943 1.25E-06 4.61E-07