Extract Annotations

The Extract annotations tool makes it very easy to extract parts of a sequence (or several sequences) based on its annotations. In just a few steps, it becomes 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 13.1 where you can select one or more annotated sequences, or annotation tracks, or variant tracks, or statistical comparisons. Click Next.

Image extractannotations_genomics_step2
Figure 13.1: Select one or more annotated sequences, annotations, variant tracks or (in this figure) statistical comparisons.

If you selected tracks as input, the next step will ask for a reference sequence track to use for extracting the annotations, or which annotations to use if an annotated sequence was selected as input (figure 13.2).

Image extractannotations_genomics_step3
Figure 13.2: 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 Finish to start the tool.