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 mr1895 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
vg0909783541 sf0909782540 9 9783541 6.88E-08 4.70E-06
vg0910545208 sf0910544207 9 10545208 1.16E-06 4.12E-06
vg0212840665 sf0212840661 2 12840665 2.05E-06 4.42E-06
vg0314687794 sf0314686481 3 14687794 2.50E-06 7.65E-06
vg1120996498 sf1120530377 11 20996498 2.85E-06 4.66E-06