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 mr1695 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
vg0726559137 sf0726558143 7 26559137 8.76E-10 NA
vg0420829235 sf0420657278 4 20829235 1.01E-08 NA
vg0604760614 sf0604759615 6 4760614 2.06E-08 NA
vg1217863038 sf1217834472 12 17863038 2.64E-08 NA
vg0714165066 sf0714164073 7 14165066 4.24E-08 NA
vg0212173682 sf0212173678 2 12173682 5.09E-08 NA
vg0908416726 sf0908415726 9 8416726 8.47E-08 3.17E-06