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PSEQUIN(1)		   NCBI	Tools User's Manual		    PSEQUIN(1)

NAME
       Psequin - submit	sequences to Genbank, EMBL, and	DDBJ

SYNOPSIS
       Psequin	[-b]  [-bse] [-e] [-f filename]	[-gc] [-h] [-oldaln] [-oldasn]
       [-oldgph] [-oldseq] [-oldsource]	[-s] [-w] [-x]

DESCRIPTION
       Psequin is a program designed to	aid in the submission of sequences  to
       the  GenBank,  EMBL, and	DDBJ sequence databases. It was	written	at the
       National	Center for Biotechnology Information, part of the National Li-
       brary of	Medicine at the	National Institutes of Health.

       Psequin	can  assemble  the essential elements of a GenBank record from
       simple FASTA-format text	files. For example, the	 program  obtains  the
       proper genetic code from	an organism name, and automatically determines
       coding region intervals by back-translation from	the protein  sequence.
       An  on-line  help  window  scrolls to the appropriate place as the user
       moves between and within	data entry forms, giving relevant  details  on
       what information	is expected.

       Psequin	also  contains	a  number of built-in validation functions for
       quality assurance. Features such	as  splice  sites  and	coding	region
       translations  are checked for accuracy or internal consistency. Double-
       clicking	on an error message launches an	appropriate  editor  by	 which
       the user	can correct any	problems.

       Psequin provides	live, clickable	views of the data in a variety of for-
       mats, including a report	form, GenBank flatfile,	EMBL flatfile,	and  a
       graphical  view.	 Double	 clicking  on  an item in any of these formats
       launches	an editor for that item. The editor is capable of  maintaining
       correct	feature	 table positions as the	underlying sequence is edited.
       It can display features on the sequence during editing, and allows fea-
       ture intervals to be adjusted by	direct manipulation.

OPTIONS
       -b     Bioseq-set mode

       -bse   binseqentry mode

       -e     Entrez mode

       -f filename
	      read from	filename

       -gc    genome center mode

       -h     turn off automatic help

       -oldaln
	      use old alignment	reader

       -oldasn
	      leave as old ASN.1

       -oldgph
	      use old graphic view

       -oldseq
	      use old sequence view

       -oldsource
	      use old flat-file	source format

       -s     subtool mode

       -w     workbench	mode

       -x     read from	standard input

AUTHOR
       The National Center for Biotechnology Information.

SEE ALSO
       sbtedit(1), tbl2asn(1), sequin.htm, <http://www.ncbi.nlm.nih.gov/Se-
       quin/>.

NCBI				  2005-11-04			    PSEQUIN(1)

NAME | SYNOPSIS | DESCRIPTION | OPTIONS | AUTHOR | SEE ALSO

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