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 mr1849 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
vg1217915087 sf1217886521 12 17915087 2.81E-08 6.17E-06
vg0820973825 sf0820971112 8 20973825 3.27E-07 5.58E-07
vg0624726893 sf0624725896 6 24726893 4.10E-07 1.46E-07
vg1109530380 sf1109524957 11 9530380 1.98E-06 2.46E-06
vg1020189984 sf1020118466 10 20189984 8.27E-06 3.60E-06