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Optimized Application Oligo >> qPCR probes >> Molecular Beacons

Molecular Beacons

Hairpin shaped hybridization probes with an internally quenched fluorophore to detect specific sequences.

Molecular Beacons are comparable with our Dual Labeled Probes. They are also available in a multitude of fluorescent dyes and quencher options. Molecular beacons, or molecular beacon probes known hybridization probes that can quenched the presence of specific nucleic acids in homogenous solutions. Beacons are hairpin like structure with an internally fluorescent dyes which act and bind to a target nucleic acid sequence.

Eurofins offer various dyes combination for synthesis in our US/Germany facility as

5' Reporter

Abs [nm]

Em [nm]

3' Quencher

FAM

495

520

TAM, BHQ1, DAB, Eclip

TET

521

536

DAB

JOE

520

548

TAM

HEX

535

556

BHQ1, DAB

Cyanine3

552

570

BHQ2, DAB

ATTO 550

554

576

DAB

TAMRA

544

576

BHQ2

ROX

575

602

BHQ2

Texas Red

583

603

BHQ2

Cyanine5

649

670

BHQ2, BBQ650

 

Specifications

Product specifications:

  • HPLC purification included
  • Wobbles (non-defined ratio) possible
  • TAT of 2-3 weeks
  • Delivery: lyophilised or concentration adjusted in tubes
  • Quality control by OD measurement and MALDI-TOF MS

Synthesis scale1 [µmol]

0.05

0.2

1

Minimum Yield [nmol]2

5

15

30

Yield [OD]2

1-1.5

3

6

Length restriction

8 to 40

8 to 40

8 to 40

 

Principle of Molecular Beacons

Molecular beacons contain a fluorescent reporter and a quencher at their 5' and 3' ends, respectively.

The sequence of these probes is designed to allow the formation of a hairpin structure in which the fluorescent dye and the quencher are in close proximity.

A molecular beacon specific for the sequence of interest is used in PCR. The probe is designed to anneal between the PCR primers.

Molecular Beacons

When the probe hybridises to its target sequence in the PCR annealing step, the loop opens and the fluorescent reporter and quencher are separated, resulting in a fluorescent signal upon excitation. The amount of signal is proportional to the amount of target sequence, and is measured in real time to allow quantification of the amount of target sequence.