To extract an annotation to a separate document, select it either on the sequence or in the Annotations Table and click Extract. If you want to actively link the extracted annotation to the source document (so that changes on the source document are propagated to the extracted document), check Actively link source and extracted documents.
If the annotation you are extracting contains multiple intervals, the intervals can be concatenated into a single sequence. If this option is not selected, then each interval in the annotation will be extracted to a separate sequence and grouped into a list.
Bulk extraction of annotations can be done in two ways:
What to Extract allows you to set which part of the sequence to extract (e.g. just the annotated region, or the entire sequence) based on the criteria you have set. To extract regions of sequence upstream or downstream of the annotated sequence, enter the length of the additional sequence you want to extract under Extraction Context. Intersecting Annotations allows you to set what to do with other annotations that don’t match the criteria, but which overlap with the matched region.
If there are multiple annotations on one sequence which match the criteria, these can be concatenated into one sequence by checking Concatenate regions within each sequence.