PolyA_DB: A database for mammalian mRNA polyadenylation

Document Type

Article

Publication Date

1-1-2005

Abstract

Messenger RNA polyadenylation is one of the key post-transcriptional events in eukaryotic cells. A large number of genes in mammalian species can undergo alternative polyadenylation, which leads to mRNAs with variable 3′ ends. As the 3′ end of mRNAs often contains cis elements important for mRNA stability, mRNA localization and translation, the implications of the regulation of polyadenylation can be multifold. Alternative polyadenylation is controlled by cis elements and trans factors, and is believed to occur in a tissue- or disease-specific manner. Given the availability of many databases devoted to other aspects of mRNA metabolism, such as transcriptional initiation and splicing, systematic information on polyadenylation, including alternative polyadenylation and its regulation, is noticeably lacking. Here, we present a database named polyA_DB, through which we strive to provide several types of information regarding polyadenylation in mammalian species: (i) polyadenylation sites and their locations with respect to the genomic structure of genes; (ii) cis elements surrounding polyadenylation sites; (iii) comparison of polyadenylation configuration between orthologous genes; and (iv) tissue/organ information for alternative polyadenylation sites. Currently, polyA_DB contains 45 565 polyadenylation sites for 25 097 human and mouse genes, representing the most comprehensive polyadenylation database till date. The database is accessible via the website (http://polya.umdnj.edu/polyadb). © Oxford University Press 2005; all rights reserved.

Identifier

13444302775 (Scopus)

Publication Title

Nucleic Acids Research

External Full Text Location

https://doi.org/10.1093/nar/gki055

ISSN

03051048

PubMed ID

15608159

First Page

D116

Last Page

D120

Issue

DATABASE ISS.

Volume

33

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