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 mr1621 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
vg1218108461 sf1218079897 12 18108461 3.87E-08 4.39E-08
vg0136242530 sf0136241487 1 36242530 4.93E-08 1.21E-06
vg1218154986 sf1218126422 12 18154986 7.85E-08 2.48E-06
vg0328874978 sf0328868031 3 28874978 4.51E-07 6.97E-06
vg0706405260 sf0706404265 7 6405260 NA 3.20E-06