ensembl-hive
2.6
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Public Member Functions | |
public Bio::EnsEMBL::StopCodonReadthroughEdit | new () |
Public Member Functions inherited from Bio::EnsEMBL::SeqEdit | |
public Bio::EnsEMBL::SeqEdit | new () |
public Int | start () |
public Int | end () |
public String | alt_seq () |
public Int | length_diff () |
public String | name () |
public String | code () |
public String | description () |
public Bio::EnsEMBL::Attribute | get_Attribute () |
public Reference | apply_edit () |
Biologically, STOP codon readthrough is a rare phenomenon whereby translation does not terminate at an in-frame STOP codon, but instead continues further downstream. 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 RefSeq representation.
Definition at line 33 of file StopCodonReadthroughEdit.pm.
public Bio::EnsEMBL::StopCodonReadthroughEdit Bio::EnsEMBL::StopCodonReadthroughEdit::new | ( | ) |
Arg [-POSITION] : int - start and end position of the stop codon readthrough edit in the sequence
Example :
Description: Creates a new stop codon readthrough edit object Returntype : Bio::EnsEMBL::StopCodonReadthroughEdit Exceptions : none Caller : general Status : Stable