Changed attribute code length to 14 characters.

modules/Bio/EnsEMBL/StopCodonReadthroughEdit.pm

@@ -57,7 +57,7 @@ limitations under the License.
   It is believed the STOP codon is instead read as a 'sense' codon, i.e. encodes for an amino acid.
 
   The location of a STOP codon readthrough is indicated by an asterisk (*) in the post translation sequence.
-  This class edits the sequence to replace the asterisk (*) with an 'X' to make it similar to Uniprot representation.
+  This class edits the sequence to replace the asterisk (*) with an 'X' to make it similar to RefSeq representation.
 
 =head1 METHODS
 
@@ -92,7 +92,7 @@ sub new {
         -START   => $position,
         -END     => $position,
         -ALT_SEQ => 'X',
-        -CODE    => '_stop_codon_readthrough');
+        -CODE    => '_stop_codon_rt');
 
   return $stop_codon_rt_edit;
 

modules/Bio/EnsEMBL/Translation.pm

@@ -1108,7 +1108,7 @@ sub get_all_SeqEdits {
 
   my $attribs;
   
-  $edits ||= ['initial_met', '_selenocysteine', 'amino_acid_sub', '_stop_codon_readthrough'];
+  $edits ||= ['initial_met', '_selenocysteine', 'amino_acid_sub', '_stop_codon_rt'];
   
 
   foreach my $edit(@{wrap_array($edits)}){
@@ -1149,7 +1149,7 @@ sub get_all_selenocysteine_SeqEdits {
 
 sub get_all_stop_codon_SeqEdits {
   my ($self) = @_;
-  return $self->get_all_SeqEdits(['_stop_codon_readthrough']);
+  return $self->get_all_SeqEdits(['_stop_codon_rt']);
 }
 
 =head2 modify_translation

modules/t/test-genome-DBs/homo_sapiens/core/attrib_type.txt

@@ -20,4 +20,4 @@
 20	proj_parent_g	projection parent gene	Stable identifier of the parent gene this gene was projected from (projection between different species and/or assemblies).
 21	proj_parent_t	projection parent transcript	Stable identifier of the parent transcript this transcript was projected from (projection between different species and/or assemblies).
 22	mirna_arm	miRNA arm	Hairpin arm from which this miRNA has come from
-23	_stop_codon_readthrough	Stop Codon Readthrough	\N
+23	_stop_codon_rt	Stop Codon Readthrough	\N