• Have a look at a short article describing this site: J. Sühnel, Trends in Genetics 1997, 13, 206-207, Views of RNA on the World Wide Web (reprint version in PDF format, PubMed link).
• Read a WebWatch description of this website in Nature Reviews: Molecular Cell Biology 2002, 3, 3-9. [WebWatch is on p. 4; PDF].
• Read a Website Review in ChemBioChem 2003, 4, 1103 [PDF].

2005: FEBS Letters Special Issue on RNAi  [open access]

2005: Nature Reviews Focus on RNA interference    [freely available until October 2006]
          includes an animation (requires Macromedia Flash Player for the animation or alternatively Apple Quicktime for the movies)

2003: Breakthrough of the Year (19 December 2003 issue of Science) [free]
          Small RNA Molecules Among the Runners-Up  [requires subscription]

• The Nucleic Acid Database (NDB)
• The Protein Data Bank (PDB) 
• The RiboWeb Project (three-dimensional models of the E. coli 30 S ribosomal subunit and 16 S rRNA) 
• RNase P 3D models 
• Jena Library of Biological Macromolecules - JenaLib 
  • (with a compilation of all RNA structures from the Protein Data Bank) 
• The RNA Structure Database 
• SCOR: Structural Classification of RNA 
• Ribosome Images (Wadsworth Center Microscope 3D Database) 
• VIPERdb (Virus Particle Explorer) 
• Base pairs 
  • Compilation by Tinoco 
  • Compilation by Dirheimer et al. 
  • Database of non-canonical base pairs found in known RNA structures (Fox Lab) 
  • RNA base pair isostericity (Leontis, Westhof) 
  • The Base Pair Directory of the Jena Library of Biological Macromolecules - JenaLib 

• 5S Ribosomal RNA Database 
• Database of Ribosomal Crosslinks (DRC) 
• Ribosomal Database Project II 
• Ribosomal RNA Mutational Database 
• The European Ribosomal RNA Database 
• Ribosomal Internal Spacer Sequence Collection (RISSC)  (Does no longer work ???)
• Comparative RNA Web Site 
  • Old RNA Secondary Structures Site 

• tRNA and tRNA Gene Sequences 
• GtRDB: The Genomic tRNA Database 
• MITOMAP: A human mitochondrial genome database (including information on MtDNA Base Substitution Diseases: rRNA/tRNA Point Mutations)
• PLMItRNA: A Database of tRNA Molecules and Genes in Mitochondria of Photosynthetic Eukaryotes 
• Aminoacyl-tRNA Synthetases Database (AARS) 

• siRNA Database and Resources of RNA Interference
• siRNA and RNA Interference Research Portal [new]

• tmRDB 
• tmRNA  ext
• tmRNA Website 

• Rfam Database [UK | US site] of RNA Alignments and Covariance Models for Non-coding RNA Families
• RNA Editing Web Site 
• UTResource: Sequence analysis of 5' and 3' untranslated regions of eukaryotic mRNA  
• Small RNA Database 
• miRBase: the home of microRNA data
• Methylation Guide snoRNA Database 
• Regulatory Non-Coding RNAs database
• RNAdb (Mammalian Non-coding RNA Database)
• Non-Coding RNAs in Plants 
• miRNA Target Gene Prediction (Drosophila)

• Aptamer Database 
• Guide RNA Database 
• Human AU-Rich Element-Containing mRNA Database (ARED) 
• NMD Database (NMD - Nonsense mediated mRNA decay) 
• probeBase - Online resource for rRNA-targetede oligonucleotide probes
• PseudoBase: A Database with RNA Pseudoknots 
• RECODE - Database of translational recoding events
• RNA Modification Database 
• RNase P Database 
• RNAi Database
• Signal Recognition Particle Database 
• Subviral RNA Database 
• YIDB: The Yeast Intron Database 

• ARAGORN (detecting tRNAs and tmRNAs in nucleotide sequenes)
• Base Pair Viewer [BPView Program]
• B Java-based, on-line biomolecular modeling package. It should be useful in generating initial structures of biopolymers and small organic molecules. Simple force-field energy minimizations can be carried out in addition to simulated annealing with molecular dynamics. 
• BRUCE (detecting tmRNAs in in nucleotide sequences)
• MC-Annotate - The RNA structure evaluator
• PatScan(PatScan is a pattern matcher which searches protein or nucleotide (DNA, RNA, tRNA etc.) sequence archives for instances of a pattern which you input) 
• Ribosomal Data Project II Online Analyses
• RNA mfold web server 
• RNAView Secondary Structure Viewer
• siRNA Duplex Finder in mRNA
• siRNA Target Finder
• Transterm - mRNA analysis server 
• RNA secondary structure prediction server (Moscow State University) 
• Tinoco plot
• tRNAscan SE (search for transfer RNA genes in a genomic sequence)
  Web interface to the RNAfold program (Vienna package) 

• 3DNA (Versatile package for analyzing and rebuilding 3-dimensional nucleic acid structure)
• CARD (RNA secondary structure drawing)  Does anybody know the new web address ?
• COVE (RNA structure analysis using covariance models) 
• CURVES (Helical analysis of irregular nucleic acid structures)
• DCSE (Sequence editor )  Does anybody know the new web address ?
• ERPIN (Easy RNA Profile IdentificatioN)
• ESSA (RNA secondary structure analysis ) 
• INFERNAL (inference of RNA secondary structure alignments)
• Mc-Sym (Molecular modeling using constraint satisfaction) 
• MFOLD (RNA/DNA secondary structure prediction) 
• NAB (Generation of models for unusual RNA and DNA) 
• NAMOT (Nucleic Acid Modeling Tool) 
• PatSearch(searches protein or nucleotide sequences in order to find a complex patterns including potential secondary structure elements
• PKNOTs (RNA pseudoknot prediction) 
• QRNA (ncRNA genefinder) 
• RALEE - RNA ALignment Editor in Emacs
• RNABOB (Pattern searching for RNA secondary structures) 
• RNACAD (Stochastic context-free grammar RNA modeling package that accounts for both primary and secondary structure information) 
• RNAdraw 
• RNAMotif
• RNA Movies (Visualizing RNA secondary structure spaces) 
• RNAstructure (MS-Windows implemenatiion of the Zuker algorithm for RNA folding accompanied by additional tools) 
• RNAMLview/RNAView (generates 2-dimensional displays of RNA/DNA secondary structures with tertiary interactions)
• RnaViz (Secondary structure drawing of RNA) 
• STRUCTURE_DIST (visualization of conserved RNA structures)
• SStructView (RNA secondary structure Java applet ) 
• STAR (STructure Analysis of RNA)
• TRNASCAN-SE (tRNA detection in large-scale genome sequences) 
• Yammp (Modeling and refinement of low-resolution nucleic acid models ) 
• Vienna RNA Package (RNA secondary structure prediction and comparison) 

• Nucleic Acids (Baggott, Dennis) [Chapter from Netbiochem]
• The Big Picture Book of Viruses (DNA and RNA) (Garry Lab )

• RNA structure (from a beginner's guide to molecular biology) 
• The Ribosome (1 | 2) 
• RNA and DNA as Catalysts (Eckstein)
• Coronaviruses (Cann) 
• Picornaviruses (Cann) 
• Rhabdoviruses (Cann) 
• Rhabdoviruses (Xiong) 
• Red Clover Necrotic Mosaic Virus (Xiong) 
• Retroviruses (Cann) 
• Saguaro Cactus Virus (Xiong, Weng) 
• Virus Genomes (Cann) 
• Virus Taxonomy (DNA and RNA) 
• Algorithms and Thermodynamics for RNA Secondary Structure Prediction (Zuker) 
• Free Energy and Enthalpy Tables for RNA Folding 
• RNAi
  • General Information (Macalester College)
• RNA Metabolism 

• see the Meeting Page of the RNA Society

• Journal of RNAi and Gene Silencing 
• RNA (Journal) 
• RNAbiology (Journal)
• The RNA Society 

If the information you need is not available via one of the links you can try 

Internet Search Engines

• Google
• Google Scholar
• Scirus

or Bibliographic Databases like the

• PubMed Retrieval System 

  (PubMed searches the 9 million citations in MEDLINE supplemented by pre-Medline citations which do not yet have MeSH index terms and by citations supplied electronically by publishers)

or combined Bibliographic/Sequence/Structure Databases such as

• ENTREZ. 

An increasing number of biological journals provide WWW access to full articles and additional search options. One example is the

• Journal of Biological Chemistry.