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 mr1141 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
vg0906664708 sf0906663708 9 6664708 1.16E-06 1.16E-06
vg0906682620 sf0906681620 9 6682620 1.80E-06 1.80E-06
vg0707899397 sf0707898402 7 7899397 2.94E-06 2.94E-06
vg1127311930 sf1126840317 11 27311930 3.28E-06 3.28E-06
vg0429305371 sf0429120234 4 29305371 5.31E-06 5.31E-06