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 mr1194 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
vg0803417672 sf0803416675 8 3417672 9.97E-08 9.97E-08
vg1119826378 sf1119377947 11 19826378 2.47E-07 2.47E-07
vg1217890002 sf1217861436 12 17890002 6.90E-07 6.90E-07
vg1214636161 sf1214633501 12 14636161 3.15E-06 3.15E-06
vg1224449038 sf1224415491 12 24449038 3.86E-06 3.86E-06
vg0803360078 sf0803359081 8 3360078 4.34E-06 4.34E-06