Circbank: a comprehensive database for circRNA with standard nomenclature

RNA Biol. 2019 Jul;16(7):899-905. doi: 10.1080/15476286.2019.1600395. Epub 2019 Apr 25.

Abstract

Circular RNAs (circRNAs) represent a new type of regulatory RNA which forms a covalently closed continuous loop from back-splicing events, a process in which the downstream 5' splice site and the 3' splice site are covalently linked. Emerging evidence indicates that circRNAs exert a new layer of transcriptional and post-transcriptional regulation of gene expression. However, there is no standard nomenclature of circRNA, although the study of circRNAs has exploded in the past few years. Here we present circbank ( www.circbank.cn ), a comprehensive database for human circRNAs, where a novel naming system of circRNAs based on the host genes of circRNAs was implemented. In addition to the new naming system, circbank collected other five features of circRNAs including the miRNA binding site, conservation of circRNAs, m6A modification of circRNAs, mutation of circRNAs and protein-coding potential of circRNAs. Circbank is publicly available and allows users to query, browse and download circRNAs with all six features we provided, based on different search criteria. The database may serve as a resource to facilitate the research of function and regulation of circRNAs.

Keywords: CircRNAs; circbank; database; nomenclature.

MeSH terms

  • Binding Sites
  • Conserved Sequence / genetics
  • Databases, Genetic*
  • MicroRNAs / genetics
  • MicroRNAs / metabolism
  • Open Reading Frames / genetics
  • RNA / genetics*
  • RNA, Circular
  • Terminology as Topic*

Substances

  • MicroRNAs
  • RNA, Circular
  • RNA

Grants and funding

This work was supported by grants from the Guangzhou Economic and Technological Development Zone.