ViroidDB: a database of viroids and viroid-like circular RNAs | Zendy

Benjamin D. Lee | Zendy; Uri Neri | Zendy; Caleb J Oh | Zendy; Peter Simmonds | Zendy; Eugene V. Koonin | Zendy

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ViroidDB: a database of viroids and viroid-like circular RNAs

Author(s) -

Benjamin D. Lee,

Uri Neri,

Caleb J Oh,

Peter Simmonds,

Eugene V. Koonin

Publication year - 2021

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkab974

Subject(s) - viroid , biology , circular rna , ribozyme , sequence (biology) , upload , pipeline (software) , rna , computational biology , computer science , genetics , world wide web , operating system , gene

We introduce ViroidDB, a value-added database that attempts to collect all known viroid and viroid-like circular RNA sequences into a single resource. Spanning about 10 000 unique sequences, ViroidDB includes viroids, retroviroid-like elements, small circular satellite RNAs, ribozyviruses, and retrozymes. Each sequence's secondary structure, ribozyme content, and cluster membership are predicted via a custom pipeline optimized for handling circular RNAs. The data can be explored via a purpose-built user interface that features visualizations, multiple sequence alignments, and a portal for downloading bulk data. Users can browse the data by sequence type, taxon, or typo-tolerant search of metadata fields. The database is freely accessible at https://viroids.org.

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