Viral RNA families
Rfam collaborates with the European Virus Bioinformatics Centre (EVBC) aiming to provide a comprehensive database for virologists interested in RNA secondary structures.
Learn more about EVBC →
Coronaviridae RNA families
Rfam contains 10 families representing the entire 5'- and 3'- untranslated regions (UTRs) for Alpha-, Beta-, Gamma-, and Deltacoronaviruses. A specialised set of alignments for the subgenus Sarbecovirus is also provided, including the SARS-CoV-1 and SARS-CoV-2 UTRs.
There are also 4 non-UTR families, including Coronavirus packaging signal, Coronavirus frameshifting stimulation element, Coronavirus s2m RNA, and Coronavirus 3'-UTR pseudoknot.
View Coronaviridae familiesFlaviviridae RNA families
| Accession | Rfam ID | Description |
|---|---|---|
| RF03546 | Flavivirus-5UTR | Flavivirus 5' UTR |
| RF00185 | Flavi_CRE | Flavivirus 3' UTR cis-acting replication element (CRE) |
| RF00525 | Flavivirus_DB | Flavivirus DB element |
| RF03547 | Flavi_xrRNA | General Flavivirus exoribonuclease-resistant RNA element |
| RF03545 | Flavi_ISFV_CRE | Insect-specific Flavivirus 3' UTR cis-acting replication element (CRE) |
| RF03544 | Flavi_ISFV_repeat_Ra | Insect-Specific Flavivirus 3' UTR repeats Ra |
| RF03543 | Flavi_ISFV_repeat_Rb | Insect-Specific Flavivirus 3' UTR repeats Rb |
| RF03542 | Flavi_ISFV_repeat_Ra_Rb | Insect-Specific Flavivirus 3' UTR repeats Ra and Rb elements |
| RF03541 | Flavi_ISFV_xrRNA | Insect-specific Flavivirus exoribonuclease-resistant RNA element |
| RF03540 | Flavi_NKV_CRE | No-Known-Vector Flavivirus 3' UTR cis-acting replication element (CRE) |
| RF03539 | Flavi_NKV_xrRNA | No-known vector Flavivirus exoribonuclease-resistant RNA element |
| RF03538 | Flavi_TBFV_CRE | Tick-borne Flavivirus 3' UTR cis-acting replication element (CRE) |
| RF03537 | Flavi_TBFV_SL6 | Tick-borne Flavivirus short stem-loop SL6 |
| RF03536 | Flavi_TBFV_xrRNA | Tick-borne Flavivirus exoribonuclease-resistant RNA element |
Work in progress
We are working on adding RNA families from other viruses, such as Hepacivirus (Hepatitis C viruses), Filoviridae (e.g. Ebolavirus) and Rhabdoviridae (e.g. Rabies viruses).
Please contact Rfam if you are interested in a specific virus family or if you have feedback about this project.
