Additional file 10 of Genomic analyses of withers height and linear conformation traits in German Warmblood horses using imputed sequence-level genotypes

Additional file 10: Table S7. Results of the variant effect prediction for withers height in 2709 German Warmblood horses. Only the variants that were statistically significantly associated with withers height in the preliminary genome-wide association study (GWAS) were used as the input. Shown are all the variants that were predicted to have a high or moderate impact, including their dosage R-squared (DR2) value from imputation with Beagle 5.1 and the following information from GWAS: SNP effect (beta), standard error (SE) and p-value (p). The variants highlighted in grey are located within runs of homozygosity shared by the ten horses with the highest estimated breeding value for withers height (based on the markers on chromosome 3). The variants printed in bold were in high linkage disequilibrium (R2 > 0.8) with the top variants identified in GWAS.