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 mr1075 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
vg0132045786 sf0132044742 1 32045786 2.05E-08 6.29E-06
vg1223038204 sf1223004664 12 23038204 7.22E-08 NA
vg0300180852 sf0300179852 3 180852 4.71E-07 4.41E-07
vg1000464181 sf1000463157 10 464181 6.54E-06 NA
vg0124141412 sf0124140368 1 24141412 NA 2.89E-06