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 mr1794 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
vg0813634276 sf0813631561 8 13634276 2.95E-14 NA
vg0306755101 sf0306754101 3 6755101 1.23E-13 NA
vg0910836349 sf0910835348 9 10836349 4.11E-13 NA
vg0528650875 sf0528588230 5 28650875 5.90E-13 NA
vg0818941914 sf0818939201 8 18941914 2.02E-12 NA
vg0517978444 sf0517917930 5 17978444 9.92E-09 NA
vg1226235044 sf1226201438 12 26235044 2.06E-08 8.84E-06
vg0608047686 sf0608046687 6 8047686 2.37E-08 NA