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PACdb: PolyA Cleavage Site and 3'-UTR Database.

J Michael Brockman1, Priyam Singh, Donglin Liu

  • 1The Jackson Laboratory, Bar Harbor, ME 04609, USA. joel.graber@jax.org

Bioinformatics (Oxford, England)
|July 21, 2005
PubMed
Summary
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The PolyA Cleavage Site and 3'-UTR Database (PACdb) catalogs 3'-processing sites and 3'-UTR sequences across organisms. This resource aids in understanding the specificities and variations in 3'-end processing events.

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • The 3 kinter-end processing of eukaryotic messenger RNA involves polyadenylation and cleavage.
  • Understanding these processes is crucial for gene expression regulation.
  • Databases cataloging these elements are essential research tools.

Purpose of the Study:

  • To present the PolyA Cleavage Site and 3 kinter'-UTR Database (PACdb).
  • To provide a catalog of putative 3 kinter'-processing sites and 3 kinter'-untranslated region (UTR) sequences.
  • To facilitate the study of 3 kinter'-end processing specificities and heterogeneity.

Main Methods:

  • Development of a web-accessible database (PACdb).
  • Identification of 3 kinter'-processing sites through expressed sequence tag-genome alignments.

Related Experiment Videos

  • Cataloging of 3 kinter'-UTR sequences for multiple organisms.

    • Main Results:

    • PACdb successfully catalogs putative 3 kinter'-processing sites and 3 kinter'-UTR sequences.
    • The database enables the delineation of specificities in 3 kinter'-processing.
    • Heterogeneity in 3 kinter'-processing events is also addressed by the database.

    Conclusions:

    • PACdb serves as a valuable resource for researchers studying 3 kinter'-end processing.
    • The database aids in understanding the complexity of polyadenylation and cleavage.
    • It supports investigations into gene regulation at the 3 kinter'-end.