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.

Prefix
rfam
Keywords
genetics
Links
Homepage
Contact
Anton I Petrov   0000-0001-7279-2682   AntonPetrov
Pattern for Local Unique Identifiers

Local identifiers in Rfam database of RNA families should match this regular expression:
^RF\d{5}$

Example Local Unique Identifier
RF00230   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Rfam database of RNA families should match this regular expression:
^rfam:RF\d{5}$

Example CURIE
rfam:RF00230
Publications
Metaregistry Rfam database of RNA families

The metaregistry provides mappings between the Bioregistry and other registries. There are 8 mappings to external registries for this resource with 4 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
BioContext biocontext RFAM
EDAM EDAM Ontology logo edam 2356
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.fex4c8
GO Gene Ontology Registry logo go Rfam
Integbio Integbio logo integbio nbdc00654
Identifiers.org Identifiers.org logo miriam rfam
N2T Name-to-Thing logo n2t rfam
NCBI National Center for Biotechnology Information Registry logo ncbi RFAM
Providers

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier RF00230 is used to demonstrate the providers available for Rfam database of RNA families. A guide for curating additional providers can be found here.

Name Metaprefix URI
Rfam database of RNA families rfam https://rfam.org/family/RF00230
Bioregistry bioregistry https://bioregistry.io/rfam:RF00230
Identifiers.org miriam https://identifiers.org/rfam:RF00230
Name-to-Thing n2t https://n2t.net/rfam:RF00230