Christopher Fields > BioPerl-1.6.921 > Bio::SeqFeature::Gene::ExonI

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Module Version: 1.006921   Source   Latest Release: BioPerl-1.6.924

NAME ^

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

SYNOPSIS ^

See documentation of methods.

DESCRIPTION ^

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.

FEEDBACK ^

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User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated.

  bioperl-l@bioperl.org                  - General discussion
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Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web:

  https://redmine.open-bio.org/projects/bioperl/

AUTHOR - Hilmar Lapp ^

Email hlapp@gmx.net

APPENDIX ^

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

is_coding

 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    : 

cds

 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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