small non-coding RNA annotation database

[newtman]

Hi,

I was wondering if anyone can help me find a comprehensive annotation database for small non-coding RNAs. A database that includes not just miRNAs or piRNAs, but all of the identified small RNAs. I would really appreciate any inputs on this.

Thanks in advance

[dpryan]

RNAcentral is probably your best bet. They source RNA sequences from a growing number of databases and will have most types of small RNAs.

[newtman]

Thanks a lot dpryan. This was very helpful.

[diego diaz]

Biomart is a good option too. You could select a database (Ensembl for example), and make a filtering by non-coding annotations (lnRNAs, miRNAs, tRNAs, rRNAs, etc).

this is the link :

http://www.ensembl.org/biomart/martview/1040ef08f99cecf27f65ae805d9e7de8

[newtman]

thanks diego, I already downloaded Gencode V21, which should cover Ensembl non-coding transcripts

[bastianwur]

RFAM?
ftp://ftp.sanger.ac.uk/pub/databases...am_scan.pl.txt