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 mr1356 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
vg0623833223 sf0623832226 6 23833223 1.90E-07 1.90E-07
vg1017098057 sf1017026829 10 17098057 8.27E-07 8.27E-07
vg0729363250 sf0729362258 7 29363250 1.65E-06 1.65E-06
vg0729692653 sf0729691661 7 29692653 4.27E-06 4.27E-06
vg1117583959 sf1117117816 11 17583959 4.96E-06 4.96E-06