TaqMan: A double stranded DNA helix has 10.5 nucleotide bases per turn at a pitc

Question

TaqMan: A double stranded DNA helix has 10.5 nucleotide bases per turn at a pitch length of 36 Å. Calculate the FRET quenching efficiency for an intact probe that is 25 nucleotides in length.  

E = Ro6 / [Ro6 + R6]

Ro values (with BH quencher): Dye 1, 38 Å; Dye 2, 83 Å; Dye 3, 90 Å; Dye 4, 5 Å

5' Nuclease / TaqMan Probe Forward Primer Fluor Quench Target DNA Strand Base pairing/ Hybridization Taq DNA Polymerase b. A double stranded DNA helix has 10.5 nucleotide bases per turn at a pitch length of 36 A. Calculate the FRET quenching efficiency for an intact probe that is 25 nucleotides in length Ro values (with BH quencher): Dye 1, 38 A; Dye 2, 83 A; Dye 3, 90 A; Dye 4, 5 A

Explanation / Answer

FRET: Fluoroscence resonance energy transfer, a measure to of the interaction between two molecules labelled with different fluorophores.

Ro is Froster distance

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