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 mr1276 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
vg0202348990 sf0202348988 2 2348990 4.10E-08 4.10E-08
vg0410965624 sf0410956325 4 10965624 7.43E-07 7.43E-07
vg0517323033 sf0517262676 5 17323033 1.80E-06 1.80E-06
vg0515921664 sf0515864171 5 15921664 2.19E-06 2.19E-06
vg0235717780 sf0235711911 2 35717780 3.24E-06 3.24E-06
vg0521180478 sf0521117919 5 21180478 3.94E-06 3.94E-06
vg0224543759 sf0224537890 2 24543759 4.76E-06 4.76E-06