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 mr1282 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
vg0803656534 sf0803655537 8 3656534 3.25E-11 1.20E-08
vg0134272325 sf0134271282 1 34272325 6.76E-10 1.64E-07
vg0401895360 sf0401890956 4 1895360 9.64E-09 NA
vg0810146037 sf0810145041 8 10146037 1.79E-08 NA
vg0724243419 sf0724242425 7 24243419 3.09E-08 NA
vg0618517700 sf0618516703 6 18517700 9.71E-06 NA