NAME

GenOO::Transcript - Corresponds to a gene transcript

SYNOPSIS

    # The class represents a transcript of a gene.
    # It extends the L<GenOO::GenomicRegion> class
    
    # Instantiate 
    my $transcript = GenOO::Transcript->new(
        name          => undef,
        species       => undef,
        strand        => undef,    #required
        chromosome    => undef,    #required
        start         => undef,    #required
        stop          => undef,    #required
        copy_number   => undef,    #defaults to 1
        sequence      => undef,
        splice_starts => undef,    #required
        splice_stops  => undef,    #required
        id            => undef,    #required
        gene          => undef,    #GenOO::Gene
        utr5          => undef,    #GenOO::Transcript::UTR5
        cds           => undef,    #GenOO::Transcript::CDS
        utr3          => undef,    #GenOO::Transcript::UTR3
        biotype       => undef,
    );

DESCRIPTION

    The Transcript class describes a transcript of a gene. It can have a backreference
    to the gene in which it belongs. Protein coding transcripts have functional regions
    such as 5'UTR, CDS and 3'UTR. The transcript class extends the L<GenOO::GenomicRegion>
    and implements the L<GenOO::Spliceable> role.

EXAMPLES

    # Get the exons of the transcript
    $transcript->exons
    
    # Get the introns of the transcript
    $transcript->introns
    
    # Check if the transcript codes for a protein
    $transcript->is_coding # 0 / 1
    $transcript->cds       # undef / GenOO::Transcript::CDS