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 mr1894 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
vg0711675998 sf0711675004 7 11675998 1.46E-06 1.45E-06
vg0808715272 sf0808714276 8 8715272 1.69E-06 1.68E-06
vg0817684844 sf0817682131 8 17684844 1.91E-06 1.90E-06
vg1117484883 sf1117018738 11 17484883 2.70E-06 2.69E-06
vg0200658076 sf0200658076 2 658076 4.59E-06 4.59E-06