/ 
bioperl-1.2.2
/ Bio::SeqFeature::Gene::GeneStructureI

NAME

Bio::SeqFeature::Gene::GeneStructure - A feature representing an arbitrarily complex structure of a gene

SYNOPSIS

#documentaion needed

DESCRIPTION

A feature representing a gene structure.

FEEDBACK

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AUTHOR - Hilmar Lapp

Email hlapp@gmx.net

Describe contact details here

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    :