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 mr1367 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
vg0321155759 sf0321154269 3 21155759 3.73E-08 NA
vg0624629721 sf0624628724 6 24629721 7.42E-08 NA
vg0910802971 sf0910801970 9 10802971 3.80E-07 NA
vg0630078359 sf0630077361 6 30078359 6.29E-07 4.81E-06
vg0720600655 sf0720599662 7 20600655 1.31E-06 1.48E-06