AAT Bioquest

Can DAPI bind to RNA?

Posted December 10, 2022


DAPI can bind to RNA, although with a lower affinity than it does for DNA and also emits at a longer wavelength (500 nm). The dye intercalates through AU-selective intercalation, and only yields a 20% increase in quantum yield as compared to the DAPI/dsDNA complex. DAPI binds to both RNA and DNA at the minor groove of A-T rich regions. 

Additional resources

Interaction of DAPI with double-stranded ribonucleic acids.

DAPI - Blue Fluorescent DNA Stain

DAPI [4,6-Diamidino-2-phenylindole, dihydrochloride] *CAS 28718-90-3*

FluoroQuest™ Mounting Medium with DAPI