Table 1 sRNA databases

miRBase

miRNAs

Sequence, genomic location and

predicted targets of published

miRNAs with links to references

http://www.mirbase.org/

MirZ

miRNAs

Sequencing-based miRNA

expression profiles and predicted

targets

http://www.mirz.unibas.ch

IsomiR database

miRNAs and isomiRs

Reads and isomiRs assigned to

miRNAs from human 293T cells,

with miRNA annotation from

miRBase

http://galas.systemsbiology.net/cgi-bin/isomir/find.pl

siRNAdb

siRNAs

Experimentally verified and

predicted siRNAs. Sequence

information and links to the

literature

http://sirna.sbc.su.se/

piRNABank

piRNAs

Sequence information, clusters and

homology searches for piRNAs

http://pirnabank.ibab.ac.in/

snoRNA-LBME-db

snoRNAs, scaRNAs

Sequence, expression information

and predicted targets with

base-pairing information

http://www-snorna.biotoul.fr/

Rfam

snRNAs, snoRNAs,

miRNAs, other structural

RNAs

Sequence families of structural

RNAs. Families represented by a

multiple sequence alignment and a

probabilistic model

http://rfam.sanger.ac.uk/

NONCODE

miRNAs, piRNAs,

snoRNAs, scaRNAs

Sequence information with links to

GenBank and functional information

http://noncode.org/

RNAdb

miRNAs, snoRNAs,

piRNAs, other ncRNAs

Sequence information with links to

literature and other databases

http://jsm-research.imb.uq.edu.au/rnadb/

deepBase

miRNAs, piRNAs,

endo-siRNAs, nasRNAs,

pasRNAs, easRNAs,

rasRNAs

Sequences and clusters for sRNAs

from different tissues and for

computationally predicted sRNAs

http://deepbase.sysu.edu.cn/

fRNAdb

ncRNAs from various

sources (see text)

Annotation of known and predicted

non-coding RNAs of various

lengths with visualisation in

genomic context

http://www.ncrna.org