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 mr1182 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
vg0919855604 sf0919855123 9 19855604 2.91E-12 3.16E-07
vg0819275819 sf0819273106 8 19275819 2.62E-11 NA
vg0724265249 sf0724264255 7 24265249 8.29E-11 NA
vg0821901209 sf0821898496 8 21901209 2.02E-10 NA
vg0433931208 sf0433746104 4 33931208 7.22E-10 NA
vg1005213274 sf1005229811 10 5213274 7.52E-07 NA
vg0724383895 sf0724382901 7 24383895 1.78E-06 NA
vg0619103677 sf0619102680 6 19103677 NA 2.18E-06