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 mr1483 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
vg0114253267 sf0114252241 1 14253267 1.42E-06 1.42E-06
vg0601214799 sf0601213800 6 1214799 1.49E-06 1.49E-06
vg0114066125 sf0114065099 1 14066125 2.29E-06 2.29E-06
vg1113168608 sf1112704929 11 13168608 2.48E-06 2.48E-06
vg0611539119 sf0611538120 6 11539119 4.06E-06 4.06E-06
vg0915042229 sf0915041228 9 15042229 4.26E-06 4.26E-06
vg0107628303 sf0107627303 1 7628303 5.11E-06 5.11E-06
vg0212359529 sf0212359525 2 12359529 7.68E-06 7.68E-06