Jump to content

  • Log in with Facebook Log in with Twitter Log in with Windows Live Log In with Google      Sign In   
  • Create Account

Submit your paper to J Biol Methods today!
- - - - -

tools for checking non-specific binding of primers

  • Please log in to reply
1 reply to this topic

#1 donny



  • Active Members
  • PipPipPipPipPip
  • 74 posts

Posted 18 September 2010 - 06:09 AM

I used to use GeneJockey to check my primers for non-specific binding to my gene. There is a function called Matrix (I think) that would check for homology between my primers and my gene. It will then display a colour-coded plot showing the homology in different regions of the gene. For example, a region of yellow indicates low homology (ie non-specific priming is unlikely) and a black region means high homology (ie non-specific binding is highly probable). However, that program is for Mac OS9 and I don't use Mac anymore. I'm also not sure what this kind of analysis is called. Does anyone know of any software for Windows (preferably freeware) or online tools that can perform this kind of analysis? Thanks!

#2 pcrman



  • Global Moderators
  • PipPipPipPipPipPipPipPipPipPip
  • 1,165 posts

Posted 15 October 2010 - 01:20 PM

Here are two online tools you can try:

In silico PCR: http://genome.ucsc.e...n/hgPcr?db=hg18

Primer check http://www.tigerteam...ter/PrimerCheck

Home - About - Terms of Service - Privacy - Contact Us

©1999-2013 Protocol Online, All rights reserved.