copied from Nucleic Acids Research, 2005, Vol. 33, Database issue (link directs to table of contents with many original papers on the below mentioned databases)
back to Database resources and links

No.b Database_name_____ Full_name_and/or_description_____________________ URL 2. RNA sequence databases 229 16S and 23S rRNA Mutation Database 16S and 23S ribosomal RNA mutations http://www.fandm.edu/Departments/Biology/Databases/RNA.html 230 5S rRNA Database 5S rRNA sequences http://biobases.ibch.poznan.pl/5SData/ 411 Aptamer database Small RNA/DNA molecules binding nucleic acids, proteins http://aptamer.icmb.utexas.edu/ 232 ARED AU-rich element-containing mRNA database http://rc.kfshrc.edu.sa/ared 378 Mobile group II introns A database of group II introns, self-splicing catalytic RNAs http://www.fp.ucalgary.ca/group2introns/ 463 European rRNA database All complete or nearly complete rRNA sequences http://www.psb.ugent.be/rRNA/ 490 GtRDB Genomic tRNA database http://rna.wustl.edu/GtRDB 236 Guide RNA Database RNA editing in various kinetoplastid species http://biosun.bio.tu-darmstadt.de/goringer/gRNA/gRNA.html 76 HIV Sequence Database HIV RNA sequences http://hiv-web.lanl.gov/ 689 HuSiDa Human siRNA database http://itb1.biologie.hu-berlin.de/~nebulus/sirna/ 237 HyPaLib Hybrid pattern library: structural elements in classes of RNA http://bibiserv.techfak.uni-bielefeld.de/HyPa/ 379 IRESdb Internal ribosome entry site database http://ifr31w3.toulouse.inserm.fr/IRESdatabase/ 529 microRNA Registry Database of microRNAs (small non-coding RNAs) http://www.sanger.ac.uk/Software/Rfam/mirna/ 380 NCIR Non-canonical interactions in RNA structures http://prion.bchs.uh.edu/bp_type/ 381 ncRNAs Database Non-coding RNAs with regulatory functions http://biobases.ibch.poznan.pl/ncRNA/ 705 NONCODE A database of non-coding RNAs http://www.bioinfo.org.cn/NONCODE/index.htm 240 PLANTncRNAs Plant non-coding RNAs http://www.prl.msu.edu/PLANTncRNAs 564 Plant snoRNA DB snoRNA genes in plant species http://bioinf.scri.sari.ac.uk/cgi-bin/plant_snorna/home 723 PolyA_DB A database of mammalian mRNA polyadenylation http://polya.umdnj.edu/polyadb/ 242 PseudoBase Database of RNA pseudoknots http://wwwbio.leidenuniv.nl/~Batenburg/PKB.html 382 Rfam Non-coding RNA families http://www.sanger.ac.uk/Software/Rfam/ 244 RISSC Ribosomal internal spacer sequence collection http://ulises.umh.es/RISSC 630 RNAdb Mammalian non-coding RNA database http://ncrna.bioinformatics.com.au/ 245 RNA Modification Database Naturally modified nucleosides in RNA http://medlib.med.utah.edu/RNAmods/ 43 RRNDB rRNA operon numbers in various prokaryotes http://rrndb.cme.msu.edu/ 629 siRNAdb siRNA database and search engine http://sirna.cgb.ki.se/ 247 Small RNA Database Small RNAs from prokaryotes and eukaryotes http://mbcr.bcm.tmc.edu/smallRNA 248 SRPDB Signal recognition particle database http://psyche.uthct.edu/dbs/SRPDB/SRPDB.html 754 SSU rRNA Modification Database Modified nucleosides in small subunit rRNA http://medstat.med.utah.edu/SSUmods/ 383 Subviral RNA Database Viroids and viroid-like RNAs http://subviral.med.uottawa.ca/ 249 tmRNA Website tmRNA sequences and alignments http://www.indiana.edu/~tmrna 250 tmRDB tmRNA database http://psyche.uthct.edu/dbs/tmRDB/tmRDB.html 251 tRNA sequences tRNA viewer and sequence editor http://www.uni-bayreuth.de/departments/biochemie/trna/ 252 UTRdb/UTRsite 5'- and 3'-UTRs of eukaryotic mRNAs http://bighost.area.ba.cnr.it/srs6/

^a Each database is shown in the list only once, often in a category that was arbitrarily chosen among two or three appropriate ones. In the online version of this list at the NAR website (http://nar.oupjournals.org/), a database can be listed under two categories.

^b Accession number of the database in the online list; can be used to view the database summary, e.g. http://www3.oup.co.uk/nar/database/summary/1 shows the summary for DDBJ.