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 mr1905 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
vg0704593047 sf0704592048 7 4593047 3.24E-14 NA
vg1017085147 sf1017013919 10 17085147 1.92E-13 7.81E-06
vg0520618572 sf0520556013 5 20618572 2.65E-13 NA
vg0713900800 sf0713899807 7 13900800 2.82E-13 NA
vg0412537881 sf0412528591 4 12537881 3.55E-13 1.78E-06
vg0228243172 sf0228237303 2 28243172 2.93E-12 2.73E-06