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 mr1384 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
vg1214822308 sf1214819649 12 14822308 1.03E-06 1.03E-06
vg0820478740 sf0820476027 8 20478740 1.53E-06 1.53E-06
vg0431655631 sf0431470524 4 31655631 1.89E-06 1.89E-06
vg1218974068 sf1218945503 12 18974068 4.55E-06 4.55E-06
vg0130351635 sf0130350591 1 30351635 5.59E-06 5.59E-06
vg0805469573 sf0805468576 8 5469573 6.27E-06 6.27E-06