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 mr1930 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
vg1207772422 sf1207769828 12 7772422 8.12E-07 8.12E-07
vg0601957361 sf0601956362 6 1957361 2.07E-06 2.07E-06
vg1214849289 sf1214846630 12 14849289 2.62E-06 2.62E-06
vg0202888284 sf0202888282 2 2888284 3.11E-06 3.11E-06
vg1215125172 sf1215122508 12 15125172 3.14E-06 3.14E-06