The implications of alternative splicing in the ENCODE protein complement

Michael L. Tress, Pier Luigi Martelli, Adam Frankish, Gabrielle A. Reeves, Jan J. Wesselink, Corin Yeats, Páll Ísólfur Ólason, Mario Albrecht, Hedi Hegyi, Alejandro Giorgetti, Domenico Raimondo, Julien Lagarde, Roman A. Laskowski, Gonzalo Lopez, Michael I. Sadowski, James D. Watson, Piero Fariselli, Ivan Rossi, Alinda Nagy, Kai WangZenia, Marian Størling, Massimiliano Orsini, Yassen Assenov, Hagen Blankenburg, Carola Huthmacher, Fidel Ramirez, Andreas Schlicker, France Denoued, Phil Jones, Samuel Kerrien, Sandra Orchard, Stylianos E. Antonarakis, Alexandre Reymond, Ewan Birney, Søren Brunak, Rita Casadio, Roderic Guigo, Jennifer Harrow, Henning Hermjakob, David T. Jones, Thomas Lengauer, Christine A. Orengo, Laszlo Patthy, Janet M. Thornton, Anna Tramontano, Alfonso Valencia

    Research output: Contribution to journalJournal articleResearchpeer-review


    Alternative premessenger RNA splicing enables genes to generate more than one gene product. Splicing events that occur within protein coding regions have the potential to alter the biological function of the expressed protein and even to create new protein functions. Alternative splicing has been suggested as one explanation for the discrepancy between the number of human genes and functional complexity. Here, we carry out a detailed study of the alternatively spliced gene products annotated in the ENCODE pilot project. We find that alternative splicing in human genes is more frequent than has commonly been suggested, and we demonstrate that many of the potential alternative gene products will have markedly different structure and function from their constitutively spliced counterparts. For the vast majority of these alternative isoforms, little evidence exists to suggest they have a role as functional proteins, and it seems unlikely that the spectrum of conventional enzymatic or structural functions can be substantially extended through alternative splicing.
    Original languageEnglish
    JournalProceedings of the National Academy of Sciences of the United States of America
    Issue number104
    Pages (from-to)5495-5500
    Publication statusPublished - 2007

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