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 mr1551 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
vg0819963368 sf0819960655 8 19963368 2.24E-11 2.01E-06
vg0223262220 sf0223256351 2 23262220 7.63E-11 4.37E-07
vg0819943568 sf0819940855 8 19943568 9.33E-11 7.51E-06
vg0310462438 sf0310461354 3 10462438 1.68E-10 NA
vg0913080857 sf0913079856 9 13080857 1.73E-10 NA
vg0330758408 sf0330751295 3 30758408 7.77E-10 NA
vg0608094378 sf0608093379 6 8094378 3.67E-08 NA
vg0234356928 sf0234351059 2 34356928 1.62E-07 4.06E-06