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 mr1182 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
vg0223637476 sf0223631607 2 23637476 7.36E-08 3.41E-07
vg0223489392 sf0223483523 2 23489392 5.49E-07 3.42E-07
vg1209716081 sf1209713490 12 9716081 8.99E-07 1.60E-06
vg1209505768 sf1209503177 12 9505768 1.69E-06 2.00E-06
vg0421054354 sf0420882409 4 21054354 4.90E-06 NA