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 mr1718 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
vg0224961108 sf0224955239 2 24961108 1.29E-08 3.48E-07
vg1215101661 sf1215098998 12 15101661 3.28E-08 3.14E-06
vg0813817895 sf0813815181 8 13817895 1.81E-07 1.64E-06
vg0607961607 sf0607960608 6 7961607 1.53E-06 3.75E-06
vg0719146846 sf0719145853 7 19146846 5.97E-06 3.88E-06
vg0227543986 sf0227538117 2 27543986 7.23E-06 9.21E-07