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Updated: Sep 20, 2025

Identification of Circular RNAs using RNA Sequencing
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Identification of Circular RNAs using RNA Sequencing

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CircVIS: a platform for circRNA visual presentation.

Ya-Chi Lin1,2, Yun-Chin Wang3, Yueh-Chun Lee4,5

  • 1Department of Plant Pathology, College of Agriculture and Natural Resources, National Chung Hsing University, Taichung, 40227, Taiwan.

BMC Genomics
|June 10, 2022
PubMed
Summary
This summary is machine-generated.

CircVIS is a new database that maps circular RNAs (circRNAs) to their subcellular locations, offering insights into their molecular functions. This resource integrates existing data and provides visualization tools for researchers.

Keywords:
BackspliceChromatin-associatedCircular RNACoding circRNAPolyribosomePolysomeReference transcriptSubcellular localization

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Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Previous research on circular RNAs (circRNAs) primarily focused on sequence composition and regulatory elements.
  • Subcellular localization of circRNAs received limited attention, hindering a comprehensive understanding of their functions.

Purpose of the Study:

  • To develop CircVIS, a comprehensive database of circRNAs annotated with their subcellular localizations.
  • To integrate circRNA data from public databases and de novo identification.
  • To provide a tool for visualizing circRNA-transcript alignments and subcellular distribution.

Main Methods:

  • Collected and curated circRNAs from public databases and performed de novo identification.
  • Annotated circRNAs based on subcellular localization (nucleoplasm, chromatin-associated, cytoplasm, polyribosome).
  • Aligned circRNAs to reference transcripts and compared circRNA-derived open reading frames with parental proteins.

Main Results:

  • CircVIS provides a collection of circRNAs with detailed subcellular localization information.
  • Analysis revealed that distinct circRNAs may function in different cellular compartments.
  • The study identified circRNA-derived open reading frames and functional domains, comparing them to parental proteins.

Conclusions:

  • CircVIS enhances the understanding of circRNA biology by providing crucial subcellular localization data.
  • The database facilitates the exploration of circRNA functions in various cellular compartments.
  • CircVIS enables visualization of circRNA-transcript alignments, aiding functional annotation.