Fig. 5

Transcription-dependent imprinting at the CpG island promoter of the KBTBD6 gene in porcine and bovine oocytes. A Expressed transcripts within the locus between the MTRF1 and WBP4 genes in porcine oocytes. TPM values of RNA-seq read coverages are depicted. B Annotated protein-coding and noncoding transcripts from the susScr11 porcine genome and LTR-initiated transcript in brown, purple, and red colors, respectively, with black arrows for transcriptional directions in GeneRegionTrack based on RefSeq. LTR-RTs [MLT1F2 in + strand (left) and a potential single-copy oocyte-specific promoter region (right)] and CpG islands (I) are color-coded in red and green, respectively. C Histone modifications, H3K4me3 for active promoters and H3K36me2/3 for de novo DNA methylation. Data were normalized to 1 × depth (reads per genome coverage, RPGC). D Methylation ratios based on WGBS data. E Expressed transcripts within the locus between the MTRF1 and WBP4 genes in bovine oocytes. RNA-seq read coverages are presented as TPM values. F Annotated protein-coding transcripts from the bosTau9 bovine genome and an LTR-initiated transcript in brown and red colors, respectively, with transcriptional directions in black arrows. A bovine-specific LTR-RT [BTLTR1J in – strand; Of note, the bovine chromosome 12 is depicted backwards as indicated in the genomic coordinates (11,470,000 – 11,250,000) due to the reversed orientation of the bovine KBTBD6 gene.] and CpG islands (I) are color-coded in red and green, respectively. G H3K4me3 and H3K36me2/3 modifications normalized to 1 × depth (RPGC). H Methylation ratios from WGBS. The promoter regions are highlighted with grey vertical shades. The red vertical shades highlight the CpG island promoters of the KBTBD6 genes which are methylated in oocytes. FGO, fully grown oocytes; MII, MII stage oocytes; CC, cumulus cells; 4-cell, 4-cell stage embryos; 8-cell, 8-cell stage embryos; Blast, blastocysts; OO, oocytes; SP, sperm; Soma, somatic tissue (skeletal muscle)