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. 2007 Feb 28;35(6):1802–1811. doi: 10.1093/nar/gkm019

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© 2007 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — Features of the DNA template used in this work. Plasmid pSRTB1 contains a T7A1 promoter (bent arrow) upstream of a TFO-binding site (filled rectangle). RNAP initiating transcription from the T7A1 promoter can be stalled at +20 by omission of UTP from the transcription reactions. The inset shows the sequence of the DNA surrounding the TFO-binding site, with the TFO-binding site underlined. The TFO (bold type) binds in the major groove of DNA by forming Hoogsteen base pairs to a specific sequence within the transcribed strand. In TFO displacement reactions, the 5′ end of the TFO was labelled with ³²P (*). The position of the restriction sites used to make linearized template (ClaI and AlwNI) are shown. The ClaI site is adjacent to the TFO-binding site and is shown in italics. The distances from the centre of the AlwNI site to the ends of the TFO-binding site are given in bp.