...
The Edit sequence submenu is available in the Actions main menu and in the Sequence View context menu. Also you can use the corresponding shortuts.
When you press the Ctrl+I shortcut or select the Insert subsequence item context menu item the following dialog is opened:
...
Annotated regions resolving mode — defines either to ResizeExpand affected annotation, Remove or Split an annotation (into two annotations) in affected annotation, Split (join annotation parts) or Split (separate annotation parts) in case when the subsequence is inserted to the sequence position where some annotations are presented.
Start positionPosition to insert — the sequence position where to insert the subsequence.
Save resulted document to a new file — the result sequence can be saves to a new file instead of modifying the current file. You must select the Document location. FASTA and Genbank file formats are available when you do not include annotations to the result file. If you check the Merge annotations to this file item, the annotations will also be saved to the result file (Genbank file format is only available in this case).
In case a subsequence has been selected, the first item in the Edit sequence submenu is called Replace subsequence instead of Insert subsequence Replace subsequence is available from the context menu or by the Ctrl+R shortcut. The dialog opened in this case is similar to the dialog described above, except it already contains the sequence to be edited an doesn’t allow to input the start position.
...
Annotated regions resolving — specifies what to do with annotations that overlap with the region that is removed. You can select either Resize such annotations either Crop corresponding annotation (i.e. make it smaller) or Remove themcorresponding annotation.
Save resulted document to a new file — similar to the same parameter in the Insert subsequence dialog (described above).
Also it is possible to invert sequence. When you select the Reverse complement sequence item (in the context menu or in the Actions menu), the sequence will be inverted.