UTRdb and UTRsite: A collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

Flavio Mignone; Giorgio Grillo; Flavio Licciulli; Michele Iacono; Sabino Liuni; Paul J. Kersey; Jorge Duarte; Cecilia Saccone; Graziano Pesole

doi:10.1093/nar/gki021

UTRdb and UTRsite: A collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

Flavio Mignone, Giorgio Grillo, Flavio Licciulli, Michele Iacono, Sabino Liuni, Paul J. Kersey, Jorge Duarte, Cecilia Saccone, Graziano Pesole

Risultato della ricerca: Contributo su rivista › Articolo in rivista › peer review

Abstract

The 5′ and 3′ untranslated regions of eukaryotic mRNAs 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) and cross-links to genomic and protein data are provided. The integration of UTRdb with genomic and protein data has allowed the implementation of a powerful retrieval resource for the selection and extraction of UTR subsets based on their genomic coordinates and/or features of the protein encoded by the relevant mRNA (e.g. GO term, PFAM domain, etc.). All internet resources implemented for retrieval and functional analysis of 5′ and 3′ untranslated regions of eukaryotic mRNAs are accessible at http://www.ba.itb.cnr.it /UTR/.

Lingua originale	Inglese
pagine (da-a)	D141-D146
Rivista	Nucleic Acids Research
Volume	33
Numero di pubblicazione	DATABASE ISS.
DOI	https://doi.org/10.1093/nar/gki021
Stato di pubblicazione	Pubblicato - 1 gen 2005
Pubblicato esternamente	Sì

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title = "UTRdb and UTRsite: A collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs",

abstract = "The 5′ and 3′ untranslated regions of eukaryotic mRNAs 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) and cross-links to genomic and protein data are provided. The integration of UTRdb with genomic and protein data has allowed the implementation of a powerful retrieval resource for the selection and extraction of UTR subsets based on their genomic coordinates and/or features of the protein encoded by the relevant mRNA (e.g. GO term, PFAM domain, etc.). All internet resources implemented for retrieval and functional analysis of 5′ and 3′ untranslated regions of eukaryotic mRNAs are accessible at http://www.ba.itb.cnr.it /UTR/.",

author = "Flavio Mignone and Giorgio Grillo and Flavio Licciulli and Michele Iacono and Sabino Liuni and Kersey, \{Paul J.\} and Jorge Duarte and Cecilia Saccone and Graziano Pesole",

note = "Funding Information: We thank David Horner for helpful comments on the manuscript. This work was supported by Ministero dell{\textquoteright}Istruzione e Ricerca, Italy (projects: MIUR Cluster C03/ 2000-CEGB, PON 2000-2006 Progetto BIG, FIRB project {\textquoteleft}Bioinformatica per la Genomica e la Proteomica{\textquoteright}) and Telethon. F.M. was the recipient of a EU Marie Curie fellowship at the European Bioinformatic Institute, Hinxton, UK.",

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UTRdb and UTRsite: A collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

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