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. 2024 Jun 19;8(2):23. doi: 10.3390/epigenomes8020023

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© 2024 by the authors.

Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).

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CGIs of mouse Ldlr or Ankrd26. (A) Mouse Ldlr is located on chromosome 9. (B) The 420 nucleotides of CGI that span the promoter region of Ldlr contain 29 CpG dinucleotides, with 3 CpG-free gaps. (C–E) Examples of three designer ZF arrays based on the backbone of PRDM9 could potentially bind the CpG-free gaps of 42 nt, 50 nt, or 26 nt. Sequence logo generated by a prediction model and the matched purines (G and A) and cytosines of the actual sequence (top) are indicated by vertical lines. (F) Mouse Ankrd26 is located on chromosome 6. (G) The smaller CGI contains CpG-free gaps of 22 or 23 nt. (H,I) Examples of two designer ZF arrays that could potentially bind the guanine-rich strand of the 22 nt gap. Note that the sequence-based numbering (−1, −4, and −7) and the structure-based numbering (+6, +3, and −1) are provided above and below the sequences, respectively.