Welcome, Guest. Please Login or Register
UGENE Bulletin Board
  Welcome to our forum.
  HomeHelpSearchLoginRegister  
 
 
Page Index Toggle Pages: 1
Preserve case in DNA sequence? (Read 1858 times)
Nov 7th, 2015 at 2:20pm

Jens   Offline
YaBB Newbies

Posts: 7
*
 
I just tried to convert a PhD student in our unit to use Ugene instead of CLC workbench.

One of her problems was that she wanted to import a sequence with alternating upper-case and lower-case DNA sequences that represented exon and intron sequences.

Apparently, this works in CLC. I could not find such an option in UGene and I have no idea how generally useful this feature would be.

If possible another neat feature might be to be able to select sequence segments based on case.
 
IP Logged
 
Reply #1 - Nov 9th, 2015 at 1:31pm

German   Offline
Full Member

Posts: 118
***
 
Jens, the only thing I can suggest you is to switch on the lower/upper case annotations (see the documentation here: https://ugene.unipro.ru/wiki/pages/viewpage.action?pageId=16126576). Click the menu Settings -> Preferences, then choose the "File Format" section and choose "Use lower case annotations. After that the regions, that are written with a lower case in a file, will be annotated in UGENE with the annotation "lower_case"; and you can rename them manually to "intron".
 

2015-11-09_123123.png (41 KB | 111 )
2015-11-09_123123.png
IP Logged
 
Reply #2 - Sep 19th, 2016 at 6:11pm

ClayAnderson2   Offline
YaBB Newbies

Posts: 5
*
 
thank you
 
IP Logged
 
Reply #3 - Jan 31st, 2017 at 3:28pm

Motion Range   Offline
YaBB Newbies

Posts: 1
*
 
I'm glad I found this post. I am used to CLC and I was thrown off course when I encountered this issue. This helped and the manual addition is quite okay. Thanks
 
IP Logged
 
Page Index Toggle Pages: 1