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 mr1105 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
vg0324965295 sf0324963375 3 24965295 6.19E-07 6.19E-07
vg1007607743 sf1007623352 10 7607743 7.80E-07 7.80E-07
vg1214703763 sf1214701104 12 14703763 3.00E-06 3.00E-06
vg0723551233 sf0723550240 7 23551233 3.53E-06 3.53E-06
vg0519574921 sf0519512405 5 19574921 4.12E-06 4.12E-06