Fig. 4.

CNVR_27 overlapping with CLDN16 gene region on chromosome 1. a Regional SNP plot of CNVR_27. The mean log R ratio of CNVR_27 animals (red) and the mean log R ratio of non-CNVR_27 animals (blue). The mean log R ratio was calculated from 116 animals. SNP positions were based on the UMD3.1 assembly of the bovine genome. b CNVR_27 was visualized using the UCSC Genome Browser [62]. The RefSeq gene symbol and Ensembl IDs of CLDN16 were labeled. c Detection of CLDN16-deletion allele in CNVR_27-detected animals using PCR with flanking primers for the deleted region. CNVR_27-detected animals (lane 1 to 12) and non-CNVR_27-detected animals (lane 13 to 24), which were inferred using PennCNV analysis with the Illumina BovineHD BeadChip Array. The PCR product size of the CLDN16-deletion allele is 722 bp and that of the wild type allele is 375 bp. M, 100 bp ladder marker