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 mr1965 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
vg0426278854 sf0426093727 4 26278854 5.10E-09 NA
vg1216893818 sf1216887772 12 16893818 2.34E-08 NA
vg1102195742 sf1102191600 11 2195742 4.05E-08 NA
vg1121927907 sf1121461778 11 21927907 9.65E-08 NA
vg1218169348 sf1218140784 12 18169348 NA 1.63E-07