# UTRdb

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> Source: https://en.wikipedia.org/wiki/UTRdb
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**UTRdb 2.0** is an updated version of the specialized database **UTRdb**, which focuses on the 5' and 3' [untranslated regions](/source/Untranslated_region) (UTRs) of eukaryotic [mRNAs](/source/MRNA). These UTRs play essential roles in the [post-transcriptional regulation](/source/Post-transcriptional_regulation) of [gene expression](/source/Gene_expression) by influencing various processes, including nucleo-cytoplasmic mRNA transport, translation efficiency, subcellular localization, and mRNA stability. Since its launch in 1996, UTRdb has been a valuable resource for researchers studying UTR sequences and their functional implications.

## Content and features

UTRdb 2.0 contains a comprehensive collection of over 26 million entries, derived from more than 6 million genes across 573 species. The database is enriched with a curated set of functional annotations to enhance the understanding of UTR function. These annotations include:

- **CAGE tags**: marking the completeness of 5' UTRs
- **PolyA signals**: indicating the completeness of 3' UTRs
- **uORFs** and **IRES**: annotating upstream open reading frames (uORFs) and internal ribosome entry sites (IRES) in 5' UTRs
- **miRNA targets**: annotating experimentally validated miRNA targets in 3' UTRs
- **Evolutionarily conserved blocks**: identifying conserved regions across species
- **Rfam motifs**: recognizing RNA motifs associated with function
- **ADAR-mediated RNA editing**: annotating RNA editing events mediated by the ADAR enzyme
- **m6A modifications**: marking mRNA modifications related to N6-methyladenosine

## Web interface and access

UTRdb 2.0 provides a flexible web interface that allows users to select and retrieve subsets of UTRs based on various criteria. This tool offers comprehensive download options to access the data for further analysis.[1][2]

## References

1. Lo Giudice, Chiara; Zambelli Francesco; Chiara Matteo; Pavesi Giulio; Tangaro Marco Antonio; Picardi Ernesto; Pesole Graziano (Jan 2023). "UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions". *Nucleic Acids Res*. **51** (D1): D337–D344. [doi:10.1093/nar/gkac1016](https://doi.org/10.1093/nar/gkac1016). [PMC 9825521](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9825521). [PMID 36399486](https://pubmed.ncbi.nlm.nih.gov/36399486)

1. Grillo, Giorgio; Turi Antonio; Licciulli Flavio; Mignone Flavio; Liuni Sabino; Banfi Sandro; Gennarino Vincenzo Alessandro; Horner David S; Pavesi Giulio; Picardi Ernesto; Pesole Graziano (Jan 2010). "UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs". *Nucleic Acids Res*. **38** (Suppl_1): D75-80. [doi:10.1093/nar/gkp902](https://doi.org/10.1093/nar/gkp902). [PMC 2808995](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808995). [PMID 19880380](https://pubmed.ncbi.nlm.nih.gov/19880380)

## External links

- [UTRdb](http://utrdb.cloud.ba.infn.it/utrdb/)

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Adapted from the Wikipedia article [UTRdb](https://en.wikipedia.org/wiki/UTRdb) by Wikipedia contributors ([contributor history](https://en.wikipedia.org/wiki/UTRdb?action=history)). Available under [Creative Commons Attribution-ShareAlike 4.0 International](https://creativecommons.org/licenses/by-sa/4.0/). Changes may have been made.