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 mr1785 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
vg0820974361 sf0820971648 8 20974361 1.24E-07 3.52E-07
vg1214822308 sf1214819649 12 14822308 3.98E-07 2.78E-06
vg1007900043 sf1007915653 10 7900043 7.69E-07 8.60E-06
vg0103381628 sf0103380628 1 3381628 9.68E-07 1.13E-06
vg1107375253 sf1107370998 11 7375253 1.45E-06 2.03E-06