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 mr1866 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
vg0818466509 sf0818463796 8 18466509 1.68E-09 6.51E-07
vg0610874578 sf0610873579 6 10874578 1.77E-09 2.51E-08
vg0319282541 sf0319281301 3 19282541 1.86E-08 7.74E-06
vg0724353639 sf0724352645 7 24353639 5.15E-08 7.45E-07
vg0812013995 sf0812013000 8 12013995 9.11E-06 NA