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Nucleic Acids Research Advance Access originally published online on October 22, 2008
Nucleic Acids Research 2009 37(Database issue):D41-D48; doi:10.1093/nar/gkn702
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Nucleic Acids Research, 2009, Vol. 37, Database issue D41-D48
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

UCbase & miRfunc: a database of ultraconserved sequences and microRNA function

Cristian Taccioli1, Enrica Fabbri2, Rosa Visone1, Stefano Volinia1, George A. Calin3, Louise Y. Fong1, Roberto Gambari2, Arianna Bottoni1, Mario Acunzo4, John Hagan1, Marilena V. Iorio5, Claudia Piovan5, Giulia Romano4 and Carlo Maria Croce1,*

1Department of Molecular Virology, Immunology and Medical Genetics, The Ohio State University, Columbus, OH 43210, USA, 2Biochemistry and Molecular Biology Department, University of Ferrara, 44100 Ferrara, Italy, 3Department of Experimental Therapeutics, University of Texas, MD Anderson Cancer Center, Houston, TX 77030, USA, 4Molecular Pathology and Biology Department ‘L.Califano’, ‘Federico II’ Naples University, 80100 Naples and 5IRCCS Foundation, National Tumor Institute, 20100 Milan, Italy

*To whom correspondence should be addressed. Tel: +1 614 292 3063; Fax: +1 614 292 3558; Email: carlo.croce{at}osumc.edu

Received July 9, 2008. Revised September 3, 2008. Accepted September 29, 2008.

Four hundred and eighty-one ultraconserved sequences (UCRs) longer than 200 bases were discovered in the genomes of human, mouse and rat. These are DNA sequences showing 100% identity among the three species. UCRs are frequently located at genomic regions involved in cancer, differentially expressed in human leukemias and carcinomas and in some instances regulated by microRNAs (miRNAs). Here we present UCbase & miRfunc, the first database which provides ultraconserved sequences data and shows miRNA function. Also, it links UCRs and miRNAs with the related human disorders and genomic properties. The current release contains over 2000 sequences from three species (human, mouse and rat). As a web application, UCbase & miRfunc is platform independent and it is accessible at http://microrna.osu.edu/.UCbase4.


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