Gene difference between Balb/c and C57BL/6J?

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Mark Livingstone

It will depend on the gene. It would be great if there was an easy tool to use like Primer-Blast that let you pick the mouse substrain to design qPCR primers and look for potential "off-target" cross-reactivity.

This recent paper describes some recent database refinements for the commonly used strains:

https://www.nature.com/articles/s41588-018-0223-8

I imagine that in 99% of cases, you will find that if you test the top 2-3 of Primer-Blast suggestions you'll find a good primer pair, so it might not be the best time investment to build such a tool, but of course being careful is important to avoid embarrassing mistakes that could have been avoided.

Wiwiek Harsonowati

Hope this paper can help you. The research was conducted using Balb/c and C57BL/6J

Article Genetic background determines mouse strain differences in in...