I am trying to check the size of my single stranded RNA on agarose gel with a denaturing loading dye in TAE buffer. Although ssRNA ladder bands are appearing but my samples (having 25-100 base RNA fragments) are not visible on gel through UV transilluminator. I used 50 ng of RNA in gel. Is 50 ng RNA insufficient to be visualized through SYBR safe on agarose gel?
PS: I added SYBR safe in the gel itself !
Please suggest based on your experience...
Hi Mansi Srivastava
Sometimes 50 ng is too low to see the band on gel. You may insert at least 100 ng or 200 ng RNA and check on the gel.
Thanks
Thanks for your answer.
I tried using upto 250 ng and my bands seem to appear.
Can you suggest what voltage works best for small RNA fragments.
I am sticking to 90 volts for 1 hour.
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