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 mr1456 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
vg0803181124 sf0803180127 8 3181124 9.66E-08 7.62E-07
vg1209212048 sf1209209457 12 9212048 NA 1.90E-07
vg0805965687 sf0805964690 8 5965687 NA 2.51E-06
vg0217679973 sf0217674103 2 17679973 NA 2.85E-06
vg0421809064 sf0421637114 4 21809064 NA 3.90E-06