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 mr1266 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
vg1215125578 sf1215122914 12 15125578 7.83E-08 NA
vg1105314883 sf1105310634 11 5314883 2.38E-07 NA
vg0518984986 sf0518922470 5 18984986 5.37E-07 7.84E-07
vg0431515534 sf0431330433 4 31515534 5.32E-06 4.02E-06
vg1214822308 sf1214819649 12 14822308 NA 3.04E-06
vg0820374974 sf0820372261 8 20374974 NA 3.28E-06
vg1215167085 sf1215164421 12 15167085 NA 3.41E-06