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 mr1362 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
vg0816546085 sf0816543371 8 16546085 8.84E-07 8.84E-07
vg0702445855 sf0702444856 7 2445855 1.72E-06 1.72E-06
vg0120024417 sf0120023372 1 20024417 1.76E-06 1.76E-06
vg0122697050 sf0122696005 1 22697050 3.57E-06 3.57E-06
vg0817362261 sf0817359547 8 17362261 4.92E-06 4.92E-06
vg0719821103 sf0719820110 7 19821103 8.66E-06 8.66E-06