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Eukaryotic RNA Polymerases00:58

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RNA Polymerase (RNAP) is conserved in all animals, with bacterial, archaeal, and eukaryotic RNAPs sharing significant sequence, structural, and functional similarities. Among the three eukaryotic RNAPs, RNA Polymerase II is most similar to bacterial RNAP in terms of both structural organization and folding topologies of the enzyme subunits. However, these similarities are not reflected in their mechanism of action.
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Related Experiment Video

Updated: Jun 25, 2026

Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay EMSA and DNA-affinity Precipitation Assay DAPA
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eRNAbase: a comprehensive database for decoding the regulatory eRNAs in human and mouse.

Chao Song1,2, Guorui Zhang1,3,2,4, Xinxin Mu1,2

  • 1The First Affiliated Hospital & Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, Hengyang Medical School, University of South China, Hengyang, Hunan, 421001, China.

Nucleic Acids Research
|October 27, 2023
PubMed
Summary
This summary is machine-generated.

Enhancer RNAs (eRNAs), key gene regulators, are now cataloged in eRNAbase. This comprehensive database provides extensive annotations and novel analyses for eRNAs, illuminating their regulatory roles.

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Enhancer RNAs (eRNAs) are crucial regulators of gene transcription originating from active enhancers.
  • Existing eRNA data are fragmented, necessitating a unified resource for comprehensive analysis.
  • Understanding eRNA regulatory roles requires integrated data and advanced analytical tools.

Purpose of the Study:

  • To develop eRNAbase, a centralized database for human and mouse eRNA resources.
  • To provide extensive (epi)genetic annotations and novel analytical functions for eRNAs.
  • To facilitate the exploration of the eRNA regulatory landscape.

Main Methods:

  • Collected and uniformly processed eRNA data from 14 experiment types across GEO/SRA and ENCODE.
  • Integrated 10,399,928 eRNAs from 1012 human and mouse samples.
  • Annotated eRNA regions with diverse epigenetic marks and genomic features.

Main Results:

  • eRNAbase currently houses over 10 million eRNAs with detailed annotations.
  • The database includes super enhancers, TF binding sites, chromatin accessibility, and interaction data.
  • Novel analyses include eRNA-mediated pathway, variation, and TF-target gene regulation.

Conclusions:

  • eRNAbase serves as a powerful, user-friendly platform for querying, browsing, and visualizing eRNA regulatory information.
  • The database significantly advances the study of eRNA functions in gene regulation.
  • eRNAbase empowers researchers to explore the complex regulatory network involving eRNAs.