Bio::SeqFeature::Gene:UsernContributed Perl DocBio::SeqFeature::Gene::ExonI(3)NAMEBio::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
Mailing Lists
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
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
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:
http://bugzilla.open-bio.org/
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 :
perl v5.14.1 2011-07-22 Bio::SeqFeature::Gene::ExonI(3)