Bio::SeqFeature::Gene::GeneStructureI(3) A feature representing an arbitrarily

SYNOPSIS


#documentation needed

DESCRIPTION

A feature representing a gene structure.

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AUTHOR - Hilmar Lapp

Email [email protected]

APPENDIX

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

transcripts

 Title   : transcripts()
 Usage   : @transcripts = $gene->transcripts();
 Function: Get the transcript features/sites of this gene structure.
           See Bio::SeqFeature::Gene::TranscriptI for properties of the
           returned objects.
 Returns : An array of Bio::SeqFeature::Gene::TranscriptI implementing objects
           representing the promoter regions or sites.
 Args    :

promoters

 Title   : promoters()
 Usage   : @prom_sites = $gene->promoters();
 Function: Get the promoter features/sites of this gene structure.
           Note that OO-modeling of regulatory elements is not stable yet.
           This means that this method might change or even disappear in a
           future release. Be aware of this if you use it.
 Returns : An array of Bio::SeqFeatureI implementing objects representing the
           promoter regions or sites.
 Args    :

exons

 Title   : exons()
 Usage   : @exons = $gene->exons();
           @inital = $gene->exons('Initial');
 Function: Get all exon features or all exons of specified type of this gene
           structure.
           Refer to the documentation of the class that produced this gene
           structure object for information about the possible types.
           See Bio::SeqFeature::Gene::ExonI for properties of the
           returned objects.
 Returns : An array of Bio::SeqFeature::Gene::ExonI implementing objects
           representing the exon regions.
 Args    : An optional string specifying the type of the exon.

introns

 Title   : introns()
 Usage   : @introns = $gene->introns();
 Function: Get all introns of this gene structure.
 Returns : An array of Bio::SeqFeatureI implementing objects representing the
           introns.
 Args    :

poly_A_sites

 Title   : poly_A_sites()
 Usage   : @polyAsites = $gene->poly_A_sites();
 Function: Get the poly-adenylation features/sites of this gene structure.
 Returns : An array of Bio::SeqFeatureI implementing objects representing the
           poly-adenylation regions or sites.
 Args    :

utrs

 Title   : utrs()
 Usage   : @utr_sites = $gene->utrs();
 Function: Get the UTR features/sites of this gene structure.
           See Bio::SeqFeature::Gene::ExonI for properties of the
           returned objects.
 Returns : An array of Bio::SeqFeature::Gene::ExonI implementing objects
           representing the UTR regions or sites.
 Args    :

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