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Weird fragments in my gDNA

DNA extraction DNA molecular biology

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#1 tali7

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Posted 16 January 2014 - 07:07 AM

Hi guys

 

I'm extracting DNA from several tissue types (muscle and liver) of teleost fish, with the aim of performing a 5mC ELISA assay.  

 

I've extracted DNA from a few samples as a test for a new DNA prep method, so I could see how the DNA turns out before I did the rest of my samples.  

 

As you can see in the attached picture, I don't just have nice HMW gDNA bands - but I can't figure out what the low molecular weight fragments are.  They seem to form 2 distinct bands, but are too small (I think?) for RNA.  I don't know 28S/18S rRNA size for fish species, but these fragments are <500bp.  

 

I did an RNase treatment as well - is it possible that these bands are partially degraded RNA?

 

Thanks very much

 

Tali

Attached Thumbnails

  • 20140116 100 first batch of gDNA prep.jpg


#2 bob1

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Posted 16 January 2014 - 11:50 AM

The smeary stuff at the bottom of the gel is either degraded DNA or RNA.



#3 yoshi

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Posted 16 January 2014 - 01:09 PM

Since there are consistently 2 bands of the same size at the low molecular weight region, I would guess that they are RNA rather than degraded DNA. Do keep in mind that RNA do not run like DNA on a non-denaturing gel.





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