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 mr1885 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
vg0111726982 sf0111725956 1 11726982 2.66E-07 2.66E-07
vg0207854825 sf0207854824 2 7854825 1.96E-06 1.96E-06
vg1205727635 sf1205726617 12 5727635 2.08E-06 2.08E-06
vg0611960920 sf0611959921 6 11960920 2.24E-06 2.24E-06
vg0816119916 sf0816117202 8 16119916 3.06E-06 3.06E-06
vg0132048957 sf0132047913 1 32048957 4.11E-06 4.11E-06