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 mr1267 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
vg0421291900 sf0421119954 4 21291900 4.98E-08 4.53E-06
vg0726559146 sf0726558152 7 26559146 8.80E-07 NA
vg0420718113 sf0420546156 4 20718113 2.44E-06 1.39E-06
vg0626935791 sf0626934794 6 26935791 2.53E-06 6.02E-07
vg0421295781 sf0421123835 4 21295781 NA 2.49E-06
vg0211585441 sf0211585437 2 11585441 NA 4.04E-06