I faced this problem a little while ago, and had to ask genbank to do
the conversion for me! Can you hazard a guess
as to why Genbank makes this so difficult? Genbank put forward
the .asn format as a
standard format yet they don't offer a conversion utility (e.g. from
genbank or embl format to
.asn). I haven't tried the program mentioned below. How long has it
been available?
Mike D-S
Date: Mon, 23 Oct 2006 11:25:54 +0200
From: "Michael Nuhn" <[EMAIL PROTECTED]>
Subject: Re: [Artemis-users] Preparing Artemis annotation for Sequin
submission
To: <artemis-users@sanger.ac.uk>
Message-ID: <[EMAIL PROTECTED]>
Content-Type: text/plain; charset="iso-8859-1"
Re: [Artemis-users] Preparing Artemis annotation for Sequin
submissionHello!
I am the one who wrote the program that converts an embl file to
sequin table format.
If you have questions or need any assistance in using the program
just ask me.
You should definitely not do a copy and paste orgy.
Regards from germany,
Michael.
----- Original Message -----
From: Tim Carver
To: Jay McCarren ; artemis-users@sanger.ac.uk
Sent: Monday, October 23, 2006 10:31 AM
Subject: Re: [Artemis-users] Preparing Artemis annotation for
Sequin submission
Hi Jay
This web service may be of some use to you:
http://nbc11.biologie.uni-kl.de/framed/left/menu/auto/right/
sequin/index_sequin.shtml
?
Regards
Tim Carver
On 20/10/06 19:48, "Jay McCarren" <[EMAIL PROTECTED]> wrote:
Hello,
I'm in the process of submitting a number of fosmid sequences
and associated annotation to Genbank using the NCBI Sequin
submission software. I'm having difficulty porting my annotation
into Sequin. So far I've only been partially successful by writing
a file with the amino acids of all the CDSs and then importing this
file in the Proteins tab during the sequin submission. This
locates the CDS on my nucleotide sequence but I lose all the other
important annotation. Is there a better way to go about this? Is
there some way to generate a feature table? If so, how is this
then imported in Sequin? It seems like there must be a more
automated way about this than the cut and paste operation I'm about
to embark on.
Thanks for the help,
Jay
______________________________
Jay McCarren
Postdoctoral Associate
Massachusetts Institute of Technology
Room 48-336
15 Vassar St.
Cambridge, MA 02139
Lab: (617) 258-7407
Fax: (617) 253-7475
____________________________
Mike Dyall-Smith
Dept. Microbiology and Immunology
University of Melbourne
Ph: +61 3 8344 5693
Fx: +61 3 9347 1540
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