- Biology Workbench
 - Web-based tool, the WorkBench allows biologists to search many popular protein and nucleic acid sequence databases. A San Diego Supercomputer Centre (SDSC) project. - European Ribosomal RNA Database
- Compiles all complete or nearly complete SSU (small subunit) and LSU (large subunit) ribosomal RNA sequences.
- Nucleic Acid Database
- Aims to assemble and distribute structural information about nucleic acids.
- RNA Modification Database
- Listing of post-transcriptionally modified nucleosides from RNA.
- RNABase.org
- Annotated database containing available RNA structures.
- RNase P Database
- Compilation of RNase P sequences, sequence alignments, secondary structures, three-dimensional models, and accessory information.
- Small RNA Database
- Lists RNAs not directly involved in protein synthesis.
- The rRNA WWW Server
- Features a number of RNA databases.
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