[EMBOSS] Get a partial GenBank of a circular DNAþ

[Jon Ison]

Hi Roi

You could try cutseq to remove the middle bit of the sequence:
http://emboss.sourceforge.net/apps/cvs/emboss/apps/cutseq.html

extractseq might also be worth a look:
http://emboss.sourceforge.net/apps/cvs/emboss/apps/extractseq.html

Have a play and let us know how you get on.

Cheers

Jon



>
> Hello,
>
>
>
> Suppose I have some circular DNA RefSeq in a Genbank format. I would
> like to create a new (smaller) Genbank file (both features and sequence)
>  containing only a range of nucleotides from the original file, but a
> range that overlaps the "end". For example, if my original Genbank spans
> 1,000,000 base (1-1,000,000) I would like to get join(800,000-1,000,000,
>  1-100,000), so the new Genbank file will actually contain 300,000 bp
> from the circular DNA.
>
>
>
> How can I do that? Again, my input is a Genbank file and output should
> also be a Gebnank file.
>
>
>
> Thanks!
>
> - Roi
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