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 mr1326 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
vg0107647091 sf0107646091 1 7647091 1.15E-07 1.15E-07
vg1214590110 sf1214587450 12 14590110 1.19E-07 1.19E-07
vg0205050888 sf0205050885 2 5050888 2.25E-06 2.25E-06
vg1122138194 sf1121672065 11 22138194 3.11E-06 3.11E-06
vg0217855786 sf0217849917 2 17855786 3.55E-06 3.55E-06