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 mr1262 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
vg1105281315 sf1105277066 11 5281315 1.22E-06 1.22E-06
vg1104987638 sf1104983449 11 4987638 1.39E-06 1.39E-06
vg0431498650 sf0431313549 4 31498650 1.89E-06 1.89E-06
vg0911580904 sf0911579903 9 11580904 3.67E-06 3.67E-06
vg0421498214 sf0421326265 4 21498214 4.10E-06 4.10E-06
vg1115066964 sf1114603278 11 15066964 4.88E-06 4.88E-06
vg0421497689 sf0421325740 4 21497689 6.05E-06 6.05E-06