Registry Rfam database of RNA families

The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models (CMs). The families in Rfam break down into three broad functional classes: non-coding RNA genes, structured cis-regulatory elements and self-splicing RNAs. Typically these functional RNAs often have a conserved secondary structure which may be better preserved than the RNA sequence. The CMs used to describe each family are a slightly more complicated relative of the profile hidden Markov models (HMMs) used by Pfam. CMs can simultaneously model RNA sequence and the structure in an elegant and accurate fashion.

Missing Contact
Pattern for Local Unique Identifiers

Local identifiers in Rfam database of RNA families should match this regular expression:

Example Local Unique Identifier
RF00230   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Rfam database of RNA families should match this regular expression:

Example CURIE
Metaregistry Rfam database of RNA families

The metaregistry provides mappings between the Bioregistry and other registries. There are 7 mappings to external registries for rfam with 3 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
BioContext biocontext RFAM
EDAM Ontology edam 2356
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.fex4c8
Gene Ontology Registry go Rfam logo miriam rfam
Name-to-Thing Name-to-Thing logo n2t rfam
National Center for Biotechnology Information Registry ncbi RFAM

Providers are various services that resolve CURIEs to URLs. The example CURIE rfam:RF00230 is used to demonstrate the provides available for rfam. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.

Name Metaprefix URI
Rfam database of RNA families rfam
Bioregistry bioregistry miriam
Name-to-Thing n2t