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 mr1418 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
vg0118124341 sf0118123295 1 18124341 6.32E-07 6.32E-07
vg1210770515 sf1210767881 12 10770515 3.57E-06 3.57E-06
vg0223144984 sf0223139115 2 23144984 3.74E-06 3.74E-06
vg0728386858 sf0728385866 7 28386858 4.26E-06 4.26E-06
vg1122356822 sf1121890693 11 22356822 4.34E-06 4.34E-06