| Bio::SeqFeature::Gene::Intron(3pm) | User Contributed Perl Documentation | Bio::SeqFeature::Gene::Intron(3pm) |
Bio::SeqFeature::Gene::Intron - An intron feature
Give standard usage here
Describe the object here
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : upstream_Exon Usage : $intron->upstream_Exon() Function: exon upstream of the intron Returns : Bio::EnsEMBL::Exon Args :
Title : downstream_Exon Usage : $intron->downstream_Exon() Function: exon downstream of the intron Returns : Bio::EnsEMBL::Exon Args :
Title : phase Usage : $intron->phase() Function: returns the phase of the intron(where it interrupts the codon) Returns : int(0,1,2) Args :
Title : acceptor_splice_site
Usage : $intron->acceptor_splice_site(21,3)
Function: returns the sequence corresponding to the
consensus acceptor splice site. If start and
end are provided, it will number of base pairs
left and right of the canonical AG. Here 21 means
21 bp into intron and 3 means 3 bp into the exon.
--Intron--21----|AG|-3-----Exon
Defaults to 21,3
Returns : Bio::Seq
Args : start and end
Title : donor_splice_site
Usage : $intron->donor_splice_site(3,6)
Function: returns the sequence corresponding to the
consensus donor splice site. If start and
end are provided, it will number of base pairs
left and right of the canonical GT. Here 3 means
3 bp into exon and 6 means 6 bp into the intron.
--Exon-3--|GT|-6----Intron-
Defaults to 3,6
Returns : Bio::Seq
Args : start and end
| 2021-08-15 | perl v5.32.1 |