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 mr1582 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
vg0604300121 sf0604299122 6 4300121 1.42E-07 5.68E-07
vg1223454241 sf1223420701 12 23454241 1.45E-07 2.94E-06
vg0434355178 sf0434170072 4 34355178 2.91E-06 4.64E-06
vg0813418895 sf0813416448 8 13418895 3.09E-06 1.50E-06
vg1116933705 sf1116468584 11 16933705 6.17E-06 5.10E-06
vg0708261838 sf0708260843 7 8261838 6.31E-06 2.98E-06