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 mr1755 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
vg1218095506 sf1218066942 12 18095506 2.41E-08 6.67E-07
vg1221519059 sf1221485606 12 21519059 2.09E-07 5.91E-07
vg0900318728 sf0900317728 9 318728 8.08E-07 2.93E-06
vg1218108461 sf1218079897 12 18108461 1.45E-06 1.50E-06
vg0302893743 sf0302892739 3 2893743 3.38E-06 1.40E-06