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 mr1819 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
vg0816789012 sf0816786298 8 16789012 1.19E-07 1.19E-07
vg1126328657 sf1125857070 11 26328657 5.97E-07 5.97E-07
vg0625950834 sf0625949837 6 25950834 1.93E-06 1.93E-06
vg0101387635 sf0101386635 1 1387635 3.40E-06 3.40E-06
vg1215174586 sf1215171922 12 15174586 3.44E-06 3.44E-06