Name

SIXPACK

Status

The current release has 0 entries and was indexed 19-Sep-2004.

Creation date

Written (November 2002) - Thomas Laurent

Description

SIXPACK application details page

Display a DNA sequence with 6-frame translation and ORFs

sixpack takes a nucleic acid sequence and writes out the forwardand reverse senses of the sequence with the 3 forward and three reversetranslations in a pretty display format.

It also writes a file containing the open reading frames that are largerthan the specified minimum size (default 1 base, showing all possibleopen reading frames). These open reading frames are written as proteinsequences in the default output sequence format.

An open reading frame is defined in this program as any possibletranslation between two STOP codons.

Literature

None.

WWW

www.hgmp.mrc.ac.uk/Software/EMBOSS/Apps/sixpack.html

Ftp

The latest version of the EMBOSS package is available on ftp://ftp.uk.embnet.org/pub/EMBOSS/

Contact

This application was written by Thomas Laurent (thomas.laurent@uk.lionbioscience.com)

See also

BACKTRANSEQ	Back translate a protein sequence
GETORF	Finds and extracts open reading frames (ORFs)
MARSCAN	Finds MAR/SAR sites in nucleic sequences
PEPNET	Displays proteins as a helical net
PEPWHEEL	Shows protein sequences as helices
PLOTORF	Plot potential open reading frames
PRETTYPLOTP	Displays aligned sequences, with colouring and boxing
PRETTYSEQ	Output sequence with translated ranges
REMAP	Display a sequence with restriction cut sites, translation etc..
SHOWALIGNP	Displays a multiple sequence alignment
SHOWORF	Pretty output of DNA translations
SHOWSEQP	Display a sequence with features, translation etc..
TRANSEQ	Translate nucleic acid sequences
WOBBLE	Wobble base plot