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 mr1156 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
vg0500170952 sf0500170952 5 170952 7.40E-10 7.56E-07
vg0502159367 sf0502159342 5 2159367 2.03E-08 NA
vg1204602698 sf1204601686 12 4602698 9.77E-08 NA
vg0122121060 sf0122120015 1 22121060 8.44E-07 4.95E-06
vg1111322133 sf1111316450 11 11322133 1.46E-06 NA
vg1204930683 sf1204929668 12 4930683 7.80E-06 NA
vg0628400506 sf0628399508 6 28400506 NA 4.27E-06