Extract Annotations

The Extract annotations tool makes it very easy to extract parts of a sequence (or several sequences) based on its annotations. Using a few steps it is possible to:

The output is a sequence list that contains sequences carrying the annotation specified (including the flanking regions, if this option was selected).

To extract annotations from a sequence, go to:

        Toolbox | Classical Sequence Analysis (Image gene_and_protein_analysis) | General Sequence Analysis (Image generalsequenceanalyses)| Extract Annotations (Image extract_annotations)

This opens the dialog shown in figure 14.1 that asks for either an annotated sequence or an annotation or variant track.

Image extractannotations_genomics_step2
Figure 14.1: Select one or more annotated sequence or annotation or variant tracks.

If you selected tracks as input, the next step will ask for a sequence track to use for extracting the annotations.

Click Next. At the top of the dialog shown in figure 14.2 you can specify a sequence track (in case a track was selected as input), or which annotations to use if an annotated sequence was selected as input:

Image extractannotations_genomics_step3
Figure 14.2: Adjusting parameters for extract annotations.

The sequence of interest can be extracted with flanking sequences:

The sequences that are created can be named after the annotation name, type etc:

Click Next if you wish to adjust how to handle the results. If not, click Finish.