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  1. Intronerator (View Publication)
    Full Name of the Resource : Alternative splicing in C. elegans and C. briggsae
    Resource Category : Databases -> Nucleotide Sequence Databases -> Gene Structure, Introns and Exons, Splice Sites

    Brief Description : The Intronerator (http://hgwdev-hiram.cse.ucsc.edu/IntronWS120/) is a set of web-based tools for exploring RNA splicing and gene structure in C. elegans. It includes a display of predicted genes, cDNA alignments with the genomic sequence, a catalog of alternatively spliced genes, a database of introns and alignment data for C. briggsae sequences with the C. elegans genome. The cDNA alignments include over 100,000 ESTs and almost 1000 full length cDNAs. ESTs from embryos and mixed stage animals as well as full-length cDNAs can be compared in the alignment display with each other and with predicted genes. The alt-splicing catalog includes 844 open reading frames for which there is evidence of alternative splicing of pre-mRNA. The intron database includes 28478 introns, and can be searched for patterns near the splice junctions. Eight million bases of C. briggsae genomic sequence have been aligned with the C. elegans genome using the WABA algorithm (W.J. Kent and A.M. Zahler. 2000. Genome Res. 10:1115-1125), and this alignment data is accessible via the Tracks Display of Intronerator.
    Subject Area : RNA splicing; Gene structure; Caenorhabditis


    Institute/s :
    Department of Biology and Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California at Santa Cruz, USA
    Address of Institute/s :
    Department of Biology and Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California at Santa Cruz, Santa Cruz, CA 95064, USA
    Country : United States

    Associated Institutes :

    • Department of Biology and Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California at Santa Cruz, Santa Cruz, CA 95064, USA

    Associated Country : USA


    Authors/Contributors : Alan M. Zahler
    Contact Email : zahler@biology.ucsc.edu
    Year : 1999
    Language : English

    Keywords : *Alternative Splicing; Animals; Base Sequence; Caenorhabditis elegans/*genetics; DNA Primers; Database Management Systems; Databases, Factual; *Internet; *Introns; Sequence Alignment


  2. Intronerator (View Publication)
    Full Name of the Resource : Introns and splicing in C. elegans and C. briggsae
    Resource Category : Databases -> Invertebrate Genome Databases -> Invertebrate Genome Databases

    Brief Description : The Intronerator (http://hgwdev-hiram.cse.ucsc.edu/IntronWS120/) is a set of web-based tools for exploring RNA splicing and gene structure in C. elegans. It includes a display of predicted genes, cDNA alignments with the genomic sequence, a catalog of alternatively spliced genes, a database of introns and alignment data for C. briggsae sequences with the C. elegans genome. The cDNA alignments include over 100,000 ESTs and almost 1000 full length cDNAs. ESTs from embryos and mixed stage animals as well as full-length cDNAs can be compared in the alignment display with each other and with predicted genes. The alt-splicing catalog includes 844 open reading frames for which there is evidence of alternative splicing of pre-mRNA. The intron database includes 28478 introns, and can be searched for patterns near the splice junctions. Eight million bases of C. briggsae genomic sequence have been aligned with the C. elegans genome using the WABA algorithm (W.J. Kent and A.M. Zahler. 2000. Genome Res. 10:1115-1125), and this alignment data is accessible via the Tracks Display of Intronerator.
    Subject Area : C. elegans


    Institute/s :
    Department of Biology and Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California at Santa Cruz, Santa Cruz, USA
    Address of Institute/s :
    Department of Biology and Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California at Santa Cruz, Santa Cruz, CA 95064, USA
    Country : United States

    Associated Institutes :

    • Department of Biology and Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California at Santa Cruz, Santa Cruz, CA 95064, USA

    Associated Country : USA


    Authors/Contributors : Alan M. Zahler; W. James Kent
    Contact Email : zahler@biology.ucsc.edu
    Year : 2000
    Language : English

    Keywords : Alternative Splicing; Animals; Base Sequence; Caenorhabditis elegans / genetics; DNA Primers; Database Management Systems; Databases, Factual; Internet; Introns; Sequence Alignment