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Oligo Modifications List | Oligo Modifications Reference Category
Modification : Cy5.5
Reference Catalog Number 26-6460
Category Fluorescent Dyes
Modification Code Cy5.5
5 Prime Y
3 Prime Y
Internal Y
Molecular Weight (mw) 633.74
Extinction Coeficient (ec) 21.5
Technical Info (pdf) PS26-6460.pdf
Abvsorbance MAX 675
Emission MAX 694
Catalog NoScalePrice
26-6460-0550 nmol$450.00
26-6460-02200 nmol$450.00
26-6460-011 umol$585.00
26-6460-032 umol$877.50
26-6460-1010 umol$4,680.00
26-6460-1515 umol$5,850.00

Discounts are available for Cy5.5!
Modification* Discount Price Structure
1 site/order List price
2 sites/order 10% discount
3 sites/order 20% discount
4 sites/order 30% discount
5-9 sites/order 50% discount
10+ sites/order 60% discount
*Exceptions apply

Related Modifications
Cy5 disulfo NHS

Cyanine 5.5 (Cy5.5) is a far-red/near infra red (NIR) fluorescent dye that belongs to the Cyanine family of synthetic polymethine dyes. Cy5.5 is reactive, water-soluble, and has an absorbance maximum of 675 nm and an emission maximum of 694 nm. It is available as a phosphoramidite, and is used to fluorescently label oligonucleotides at either the 5' or 3' end, or internally. Cy5.5 plays a particularly important role in real-time PCR applications, being used as a reporter moiety in TaqMan probes (1), Scorpion primers (2) and Molecular Beacons (3). For such probes, Cy5.5 is most commonly paired with the dark quencher BHQ-3, as the two have excellent spectral overlap.

Cy5.5 can also be used to label DNA oligos for use as hybridization probes in other applications, such as Fluorescent In-Situ Hybridization (FISH).

1. Livak, K.J., Flood, S.J.A., Marmaro, J., Giusti, W., Deetz, K. Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization.PCR Methods Appl. (1995), 4: 1-6.
2. Thelwell, N., Millington, S., Solinas, A., Booth, J., Brown, T. Mode of action and application of Scorpion primers to mutation detection. Nucleic Acids Res. (2000), 28: 3752-3761.
3. Tyagi, S., Kramer, F.R. Molecular beacons: probes that fluoresce upon hybridization. Nat. Biotechnol. (1996), 14: 303-308.

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