UCbase and miRfunc

NAR Molecular Biology Database Collection entry number 1230

Database Description

Ultraconserved sequences (UCRs) were first described by Bejerano et al. in 2004. They are highly conserved genome regions that share 100% identity among human, mouse and rat. UCRs are 481 sequences longer than 200 bases. They are frequently located at genomic regions involved in cancer, differentially expressed in human leukemias and carcinomas. Here we present an updated version of UCbase, that includes new annotation based on hg19 Human genome, information about disorders related to the chromosome coordinates using the SNOMED classification, a query tool to search for SNPs, and a new text box to directly interrogate the database using a MySQL interface. To facilitate the interactive, visual interpretation of UCR chromosomal coordinates, we have re-implemented the graph visualization feature of UCbase creating a link to UCSC genome browser. Due to the existence of new databases focused on non-coding RNAs, UCbase 2.0 does not provide microRNAs information anymore focusing only on UCRs. As a web application, UCbase 2.0 is platform independent and it is accessible at http://ucbase.unimore.it.

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