title: UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs.
abstract: The 5' and 3' untranslated regions of eukaryotic mRNAs (UTRs) play crucial roles in the post-transcriptional regulation of gene expression through the modulation of nucleo-cytoplasmic mRNA transport, translation efficiency, subcellular localization and message stability. UTRdb is a curated database of 5' and 3' untranslated sequences of eukaryotic mRNAs, derived from several sources of primary data. Experimentally validated functional motifs are annotated and also collated as the UTRsite database where more specific information on the functional motifs and cross-links to interacting regulatory protein are provided. In the current update, the UTR entries have been organized in a gene-centric structure to better visualize and retrieve 5' and 3'UTR variants generated by alternative initiation and termination of transcription and alternative splicing. Experimentally validated miRNA targets and conserved sequence elements are also annotated. The integration of UTRdb with genomic data has allowed the implementation of an efficient annotation system and a powerful retrieval resource for the selection and extraction of specific UTR subsets. All internet resources implemented for retrieval and functional analysis of 5' and 3' untranslated regions of eukaryotic mRNAs are accessible at http://utrdb.ba.itb.cnr.it/.
authors.affiliation: Istituto Tecnologie Biomediche del Consiglio Nazionale delle Ricerche, via Amendola 122/D, 70126 Bari, Italy.
authors.forename: Giorgio
authors.initials: G
authors.lastname: Grillo
authors.forename: Antonio
authors.initials: A
authors.lastname: Turi
authors.forename: Flavio
authors.initials: F
authors.lastname: Licciulli
authors.forename: Flavio
authors.initials: F
authors.lastname: Mignone
authors.forename: Sabino
authors.initials: S
authors.lastname: Liuni
authors.forename: Sandro
authors.initials: S
authors.lastname: Banfi
authors.forename: Vincenzo Alessandro
authors.initials: VA
authors.lastname: Gennarino
authors.forename: David S
authors.initials: DS
authors.lastname: Horner
authors.forename: Giulio
authors.initials: G
authors.lastname: Pavesi
authors.forename: Ernesto
authors.initials: E
authors.lastname: Picardi
authors.forename: Graziano
authors.initials: G
authors.lastname: Pesole
mesh_terms: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D000465:Algorithms; D000818:Animals; D019295:Computational Biology / Q000379:methods* / Q000639:trends; D030541:Databases, Genetic; D030561:Databases, Nucleic Acid; D030562:Databases, Protein; D018745:Genome, Plant; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D020033:Protein Isoforms; D012984:Software; D014584:User-Computer Interface
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D020033:Protein Isoforms