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 mr1361 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
vg0424008068 sf0423822926 4 24008068 7.31E-07 7.31E-07
vg0817402433 sf0817399719 8 17402433 8.81E-07 8.81E-07
vg1121315763 sf1120849641 11 21315763 1.87E-06 1.87E-06
vg1100417229 sf1100416232 11 417229 2.31E-06 2.31E-06
vg0316179400 sf0316178047 3 16179400 4.17E-06 4.17E-06
vg0320045406 sf0320043917 3 20045406 4.41E-06 4.41E-06