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 mr1285 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
vg1215178307 sf1215175643 12 15178307 5.48E-07 5.48E-07
vg0820974361 sf0820971648 8 20974361 1.65E-06 1.65E-06
vg0300249514 sf0300248514 3 249514 2.98E-06 2.98E-06
vg0130689494 sf0130688450 1 30689494 4.04E-06 4.04E-06
vg1104990849 sf1104986660 11 4990849 4.33E-06 4.33E-06
vg0431614108 sf0431429003 4 31614108 4.70E-06 4.70E-06