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. 2024 Jun 5;631(8019):216–223. doi: 10.1038/s41586-024-07517-7

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© The Author(s) 2024

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 5 — a, Distance between correlated and non-correlated enhancer–gene pairs within 2.5 Mb of each other. b, Co-transcription between pluripotency genes (filled blue arrows indicate sense gene bins, open blue arrows indicate antisense gene bins) and their enhancers (represented by green arrows, and the arrow directions indicate sense and antisense directions). Correlated full-length enhancer–gene pairs (Sox2 and Nanog) are shown with purple distance bars. For finer time resolution correlation, features are extended up to the end of the transcription signal and divided into 5 kb bins. Correlated bins are represented by a red arch, except for Sox2 and its distal enhancer bins, which are shown in different colours for visual aid. c, Co-transcription between Sall1 and its CRISPR-verified SE. Correlated SE–gene bins are denoted by arches. d, Summary of correlated bin positions in CRISPR-verified SE–gene pairs. Scrambled random pairs served as a control.