StopCodonReadthroughEdit.pm 2.08 KB
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=head1 LICENSE

Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute
Copyright [2016-2019] EMBL-European Bioinformatics Institute

Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at

     http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.

=cut


=head1 CONTACT

  Please email comments or questions to the public Ensembl
  developers list at <http://lists.ensembl.org/mailman/listinfo/dev>.

  Questions may also be sent to the Ensembl help desk at
  <http://www.ensembl.org/Help/Contact>.

=cut

=head1 NAME

  Bio::EnsEMBL::StopCodonReadthroughEdit - Object representing a stop codon readthrough edit in a sequence

=head1 SYNOPSIS

  my $stopcodonrtedit = Bio::EnsEMBL::StopCodonReadthroughEdit->new($coord);

=head1 DESCRIPTION

  A representation of a stop codon readthrough edit in a sequence. 

=head1 METHODS

=cut

package Bio::EnsEMBL::StopCodonReadthroughEdit;

use strict;

use parent qw(Bio::EnsEMBL::SeqEdit);

=head2 new

  Arg [-START/END]  : 
       int - start and end postion of the stop codon readthrough edit in the sequence
  
  Example    : $stopcodonrtedit = Bio::EnsEMBL::StopCodonReadthroughEdit->new($coord);
  Description: Creates a new stop codon readthrough edit object
  Returntype : Bio::EnsEMBL::StopCodonReadthroughEdit
  Exceptions : none
  Caller     : general
  Status     : Stable

=cut

sub new {
  my ($self, $coord) = @_;
  my $caller = shift;
   
  my $class = ref($caller) || $caller;
  my $self = $class->SUPER::new(        
        -START   => $coord,
        -END     => $coord,
        -ALT_SEQ => 'X',
        -CODE    => '_stop_codon_readthrough',
        -NAME    => 'Stop Codon Readthrough');

  return $self;

}

1;