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Old 07-17-2013, 08:14 AM   #1
lior lobel
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Location: Tel Aviv

Join Date: Jun 2013
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Default rRNA sizes on Agarose gel

Hi All,

I ran a Agarsoe gel with my RNA samples and got the attached pattern.
23S rRNA and 16S rRNA are supposed to be ~3000 bps and ~1500 bps, however in this run I see 1500 and 750 bands.

Can this be a gel problem? Has anyone encountered this?

Thanks,

Lior
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File Type: pdf RNA seq rnasnap 17.7.pdf (43.7 KB, 32 views)
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Old 07-19-2013, 05:21 AM   #2
cliffbeall
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Location: Ohio

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Default

RNA will not run on a gel exactly according to its size because it is single stranded and the secondary structure can be variable. To get an accurate size you need to use a denaturing gel (formaldehyde, urea, methyl mercury) and compare it to RNA standards.

Since you see 2 pretty sharp bands, your RNA is probably fine.

Edit: There is also a bioanalyzer chip for RNA that would be an option if you have access to an instrument.

Last edited by cliffbeall; 07-19-2013 at 05:24 AM.
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