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 mr1670 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
vg0814579002 sf0814576288 8 14579002 2.61E-07 2.61E-07
vg0810921871 sf0810920876 8 10921871 3.32E-07 3.32E-07
vg1107375253 sf1107370998 11 7375253 2.17E-06 2.17E-06
vg0412512389 sf0412503099 4 12512389 3.52E-06 3.52E-06
vg1106566073 sf1106561826 11 6566073 5.04E-06 5.04E-06