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PolyA_DB: a database for mammalian mRNA polyadenylation
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 sta...
Autores principales: | , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2005
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC540009/ https://www.ncbi.nlm.nih.gov/pubmed/15608159 http://dx.doi.org/10.1093/nar/gki055 |
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author | Zhang, Haibo Hu, Jun Recce, Michael Tian, Bin |
author_facet | Zhang, Haibo Hu, Jun Recce, Michael Tian, Bin |
author_sort | Zhang, Haibo |
collection | PubMed |
description | 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). |
format | Text |
id | pubmed-540009 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2005 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-5400092005-01-04 PolyA_DB: a database for mammalian mRNA polyadenylation Zhang, Haibo Hu, Jun Recce, Michael Tian, Bin Nucleic Acids Res Articles 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 2005-01-01 2004-12-17 /pmc/articles/PMC540009/ /pubmed/15608159 http://dx.doi.org/10.1093/nar/gki055 Text en Copyright © 2005 Oxford University Press |
spellingShingle | Articles Zhang, Haibo Hu, Jun Recce, Michael Tian, Bin PolyA_DB: a database for mammalian mRNA polyadenylation |
title | PolyA_DB: a database for mammalian mRNA polyadenylation |
title_full | PolyA_DB: a database for mammalian mRNA polyadenylation |
title_fullStr | PolyA_DB: a database for mammalian mRNA polyadenylation |
title_full_unstemmed | PolyA_DB: a database for mammalian mRNA polyadenylation |
title_short | PolyA_DB: a database for mammalian mRNA polyadenylation |
title_sort | polya_db: a database for mammalian mrna polyadenylation |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC540009/ https://www.ncbi.nlm.nih.gov/pubmed/15608159 http://dx.doi.org/10.1093/nar/gki055 |
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