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. 2006 Jun;80(12):5723–5732. doi: 10.1128/JVI.00025-06

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Copyright © 2006, American Society for Microbiology

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FIG. 3. — DNase I footprinting of CTCF on EBV DNA. (A) Autoradiogram of in vitro DNase I footprinting gel showing CTCF protection on EBV DNA probe. Purified His-tagged CTCF was used for footprinting assay using EBV ³²P-labeled DNA probe covering EBV coordinates 10393 to 10594. Nucleotide ladders A and A/G were generated by chemical cleavage using the Maxim-Gilbert method. For the CTCF lanes, + indicates prominent CTCF protection from DNase I digestion from EBV coordinates 10515 to 10560, whereas − lanes (no-CTCF controls) show no protection at the same region. The arrows indicate DNase I-hypersensitive sites. (B) Sequence of EBV protected by CTCF in DNase I footprinting assay. CTCF protection covers a DNA sequence from EBV coordinates 10515 to 10560. The top arrow indicates a DNase I-hypersensitivity site. The two bottom arrows show a possible inverted repeat.