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 mr1527 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
vg0141727155 sf0141726112 1 41727155 2.62E-12 NA
vg1022399917 sf1022328391 10 22399917 1.44E-11 5.02E-06
vg0921372623 sf0921372142 9 21372623 7.98E-11 NA
vg1208269194 sf1208266599 12 8269194 9.18E-11 NA
vg0922518114 sf0922517633 9 22518114 4.21E-10 NA
vg1123146450 sf1122680321 11 23146450 NA 2.02E-06