Protocol Online logo
Top : New Forum Archives (2009-): : General Lab Techniques

software for plasmid drawing - (Jan/05/2010 )

Pages: Previous 1 2 

bob1 on Sat Nov 24 07:41:17 2012 said:


Just get random sequence from anywhere (even create it yourself by using repeats) make sure that it is roughly the right size. Add your genes of interest/restriction sites, select them and then add them as features or use the restriction site tool to highlight the RE sites then draw the map...


ok, I see.
There is no option thus to generate random sequence with ape itself then.

I'll do it like that.

-lyok-

http://sites.google.com/site/freebookmarksorg/


http://babakmemari.wordpress.com/2012/04/28/dna-analysis-software/

http://www.mybiosoftware.com/

-BMF-

Gene Construction Kit® (GCK) is a useful tool for plasmid mapping, cloning simulation, and DNA analysis. It has been consistently reviewed as being one of the easiest to use applications for simulating multi-step cloning operations, and offers extensive flexibility in the graphical formatting of DNA sequences - and - generating those colorful, customized plasmid maps seen in publications (sample attached). You can easily copy and paste grapical maps from GCK to image editing programs, or even create hi-res PDF (Mac) or XPS (Win) exports from within the program. It's been around since the mid-90's, and was one of, if not "the very first software" for performing these types of graphical manipulations of DNA sequence data.

 

More information, and a free demo version is available from the website: http://www.textco.com

 

Check it out!


Attached Image

-branthackett-


Warning: mb_substr_count() expects at most 3 parameters, 4 given in /home/protocol/public_html/forums/admin/sources/classes/text/parser/bbcode/defaults.php on line 1269

Warning: Cannot modify header information - headers already sent by (output started at /home/protocol/public_html/forums/admin/sources/classes/text/parser/bbcode/defaults.php:1269) in /home/protocol/public_html/forums/ips_kernel/classAjax.php on line 323

Warning: Cannot modify header information - headers already sent by (output started at /home/protocol/public_html/forums/admin/sources/classes/text/parser/bbcode/defaults.php:1269) in /home/protocol/public_html/forums/ips_kernel/classAjax.php on line 326

Warning: Cannot modify header information - headers already sent by (output started at /home/protocol/public_html/forums/admin/sources/classes/text/parser/bbcode/defaults.php:1269) in /home/protocol/public_html/forums/ips_kernel/classAjax.php on line 327

Warning: Cannot modify header information - headers already sent by (output started at /home/protocol/public_html/forums/admin/sources/classes/text/parser/bbcode/defaults.php:1269) in /home/protocol/public_html/forums/ips_kernel/classAjax.php on line 328


 

 

I use ApE (a plasmid editor) freeware from here to make the images and then export in eps format.


Dear bob1 do you know how you can simply enter a "fake" plasmid with only certain restriction sites/genes?
For example: I only know 3 genes that are on the plasmid and 10 restriction enzymes , for the rest I know nothing about the sequence of the plasmid itself.
So how can I create this kind of plasmid? I cant seem to find how this works.

 

Hi, you can generate a random sequence of the required length using Random Sequence Generator and paste it into the WebDSV DNA sequence editor. Then add some "mock" genes and restriction sites to the required positions and let the program generate a plasmid map (click the "map" button). Then you can right-click the map and save it as a png file.

-vladCH-
Pages: Previous 1 2