Sequin 2.28 now available

francis at NCBI.NLM.NIH.GOV francis at NCBI.NLM.NIH.GOV
Tue Sep 23 15:58:29 EST 1997


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>From francis at ncbi.nlm.nih.gov Tue Sep 23 16:55:01 1997
Date: Tue, 23 Sep 1997 16:43:41 -0400
To: sequin_users at ncbi.nlm.nih.gov
Subject: Sequin 2.28 now available
From: francis at ncbi.nlm.nih.gov

Dear Sequin users,

We have recently released a new version of Sequin, the sequence
submission/editing tool from NCBI, for all platforms.

The current version of Sequin is now 2.28

Please refer to the Sequin home page at:

    http://www.ncbi.nlm.nih.gov/Sequin/

for the latest developments, new questions in the Frequently Asked
Questions section, and the most recent version of the help
documentation.

Major changes for Sequin version 2.28
-----------------------------------------

. You can now replace or merge the sequence in the record with a new
  sequence without going into the Sequence Editor. In the main Sequin 
  window, choose one of the three items in the Edit-->Update Sequence 
  submenu. You can import a sequence in FASTA format (Read FASTA File), 
  a sequence record in ASN.1 format (Read Sequence Record), or, if you
  are running Sequin in its Network Aware mode, download a sequence
  record from Entrez (Download Accession). The alignment between your
  original sequence and the imported sequence can be viewed in a
  separate window. You can then choose to merge the 5' or 3' end of the
  imported sequence with the target sequence in the record, or replace
  the target sequence with the imported sequence. The features on the
  imported sequence  will be automatically copied to the original
  sequence. You can also choose only to propagate features from the
  imported sequence record to the target.

. If you are submitting an aligned set of sequences, and one or more of
  the sequences is already present in the GenBank/EMBL/DDBJ database, you
  can mark that sequence(s) so that it does not get a new accession
  number. Instead of providing the sequence(s) with a new Sequence
  Identifier, add 'acc' to the existing accession or gi number. For
  instance, use the identifier accU12345, where U12345 is the existing
  accession number. The sequence does not need a title since it is not
  being resubmitted to the database.  Thus, an example of a nucleotide
  definition line would be:

  >accU54469

. You can now encode a a comment in a protein definition line, and the
  text of the comment will turn into a /note on the CDS feature.  
  For example, if the definition line for the protein sequence is

  >aa1 [gene=eIF4E] [prot=eukaryotic initiation factor 4E-I]
  [comment=alternative splice product] Drosophila melanogaster
  eukaryotic initiation factor 4E-I, complete sequence

  the corresponding CDS feature will have the following fields:

  /gene="eIF4E"
  /note="alternative splice product"
  /product="eukaryotic initiation factor 4E-I"

. PowerBLAST capabilities have been enhanced. From within Sequin, you
  can perform blastn or tblastn searches of the sequence(s) in the record
  against many NCBI supported nucleotide databases, and blastp or
  blastx searches against protein databases. PowerBLAST can now also
  handle large sequences.  For additional information, see the BLAST
  home page at http://www.ncbi.nlm.nih.gov/BLAST/.

. A variety of minor bugs have been fixed (affecting all platforms).

. Additional changes are listed on the new Sequin Revision History page,
  available as a link from the Sequin home page.

Please do not hesitate to let us know  (info at ncbi.nlm.nih.gov)
if you have any questions or comments.

francis, for the sequin development team.

--
| B.F. Francis Ouellette
| GenBank Coordinator
|
| francis at ncbi.nlm.nih.gov




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