Fig. 2

CNVR_322 overlapping with ANXA10 gene region on chromosome 8. a Regional SNPs plot of CNVR_322. The mean log R ratio is indicated on the y-axis. The mean log R ratio of CNVR_322 animals (magenta) and the mean log R ratio of non-CNVR_322 animals (blue) were calculated from 35 animals. SNP positions were based on the UMD3.1 assembly of the bovine genome. b CNVR_322 (black bar) was visualized using the UCSC Genome Browser [54]. The Ensembl IDs and RefSeq gene symbol of ANXA10 were labeled. c qPCR validation of CNVR_322. The left-most bar represents a calibrator animal (JB_001). The calibrator animal is assumed to contain two copies of the DNA segment detected from the PennCNV analysis. Basic transcription factor 3 gene (BTF3), which served as an internal qPCR standard for both copies at a locus (2n), was co-amplified with the primers. The x-axis represents the animals. Brackets represent the CNVR_322-detected animals using the Illumina BovineHD BeadChip Array. Error bars represent the ± Standard Error of the Mean obtained from three experiments