Provided by: libbio-perl-perl_1.7.8-1_all
NAME
Bio::SeqFeature::Gene::GeneStructureI - A feature representing an arbitrarily complex structure of a gene
SYNOPSIS
#documentation needed
DESCRIPTION
A feature representing a gene structure.
FEEDBACK
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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 _ 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 :