Linking to RNAcentral

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Linking to sequences

Link by external accession

New! It is possible to link to RNAcentral without knowing the RNAcentral accession using a URL in the following format:

https://rnacentral.org/link/<database>:<accession>

where database is one of the RNAcentral Expert Databases, and accession is an identifier from that database (see examples below). Both parameters are case-insensitive.

This functionality relies on the RNAcentral text search. If only 1 sequence matches the database and accession, then the link will redirect to that sequence. If several sequences match, then the link will show a search result listing all matching sequences.

Examples

Direct link format

Please use the following format to link to RNAcentral sequences:

https://rnacentral.org/rna/<RNAcentral identifier>/<NCBI taxonomy identifier>

The URL includes NCBI taxonomy identifiers, for example 9606 for Homo sapiens.

Either slash / or underscore _ can be used as a separator:

Links without NCBI taxonomy identifiers show annotations from all species where the sequence was found.

You can optionally add RNAcentral logo before the link, for example:

URS000075A546/9606

Example code:

<p>
  <img src="https://rnacentral.org/static/img/logo/rnacentral-logo.png" style="width: 16px; height: 16px; vertical-align: middle;">
  <a href="https://rnacentral.org/rna/URS000075A546/9606">URS000075A546/9606</a>
</p>

RNAcentral logos are available in the Downloads section.

Mapping between third-party identifiers and RNAcentral IDs

For a small number of sequences, you can find RNAcentral accessions using text search.

If you need to perform a large-scale mapping between RNAcentral identifiers and Expert Database accessions, please use the mapping files found in FTP archive:


Linking to genome locations

You can link to a genome location of interest within the RNAcentral genome browser using links like this:

https://rnacentral.org/genome-browser?species=<species>&chromosome=<chromosome>&start=<start>&end=<end>

where:

  • <species> - organism name (lowercase, spaces replaced with underscores as in Ensembl, for example: homo_sapiens or canis_lupus_familiaris)
  • <chromosome> - chromosome name in Ensembl format, for example 1 (not chr1)
  • <start> and <end> - genome coordinates

Example:

Human XIST gene

Example code:

<p>
  <img src="https://rnacentral.org/static/img/logo/rnacentral-logo.png" style="width: 16px; height: 16px; vertical-align: middle;">
  <a href="https://rnacentral.org/genome-browser?species=homo_sapiens&chromosome=X&start=73819307&end=73856333">Human XIST gene</a>
</p>

Downloads

RNAcentral Expert Database badge

Databases integrated in RNAcentral can display an RNAcentral Expert Database badge:

Download (svg)

Example code:

<a href="https://rnacentral.org">
  <img src="https://rnacentral.org/static/img/logo/rnacentral-expert-database.svg" style="width: 140px">
</a>

The badge should link to the RNAcentral homepage or to the landing page of the member database within RNAcentral, such as https://rnacentral.org/expert-database/flybase or https://rnacentral.org/expert-database/gtrnadb.

RNAcentral icons

Here are RNAcentral logo icons in different resolutions:

RNAcentral logos


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