Christopher Fields > BioPerl > Bio::SeqFeature::Gene::ExonI



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Module Version: 1.006924   Source  


Bio::SeqFeature::Gene::ExonI - Interface for a feature representing an exon


See documentation of methods.


A feature representing an exon. An exon in this definition is transcribed and at least for one particular transcript not spliced out of the pre-mRNA. However, it does not necessarily code for amino acid.


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AUTHOR - Hilmar Lapp ^



The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _


 Title   : is_coding
 Usage   : if($exon->is_coding()) {
                   # do something
 Function: Whether or not the exon codes for amino acid.
 Returns : TRUE if the object represents a feature translated into protein,
           and FALSE otherwise.
 Args    : 


 Title   : cds()
 Usage   : $cds = $exon->cds();
 Function: Get the coding sequence of the exon as a sequence object.

           The returned sequence object must be in frame 0, i.e., the first
           base starts a codon.

           An implementation may return undef, indicating that a coding
           sequence does not exist, e.g. for a UTR (untranslated region).

 Returns : A L<Bio::PrimarySeqI> implementing object.
 Args    : 
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