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 mr1095 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
vg0222065930 sf0222060061 2 22065930 4.55E-07 1.26E-06
vg0135058637 sf0135057594 1 35058637 6.10E-07 NA
vg1103697850 sf1103693752 11 3697850 6.98E-07 3.34E-06
vg0627929341 sf0627928343 6 27929341 1.72E-06 4.76E-06
vg1203908733 sf1203907732 12 3908733 1.76E-06 1.66E-06
vg0222833455 sf0222827586 2 22833455 7.11E-06 1.39E-06
vg1002828516 sf1002827493 10 2828516 9.04E-06 1.27E-06
vg0221025908 sf0221020040 2 21025908 NA 3.00E-06
vg0124571825 sf0124570781 1 24571825 NA 3.94E-06