Quick Order |All Online Ordering|Product Catalog Ordering|Oligo Modifications List|Product Info & Literature|Oligo Design Tools/Resources


Search Modifications

Modification : Cy3B

Catalog Reference Number
Modification Code
5 Prime
3 Prime
Molecular Weight (mw)
Extinction Coeficient (ec)
Technical Info (pdf)
Absorbance MAX
Emission MAX
Absorbance EC

Fluorescent Dyes

picture of Cy3B

Catalog NoScalePrice
26-6907-0550 nmol$650.00
26-6907-02200 nmol$650.00
26-6907-011 umol$845.00
26-6907-032 umol$2,550.00
26-6907-1010 umol$6,760.00
26-6907-1515 umol$8,450.00
Related Modifications
Cy3-5' Cy2 NHS Cy5.5
Cy7 NHS Cy3.5 Cy5-5'

Cy3B modification is a post synthesis conjugation to a primary amino group thus an additional modification with an amino group is required. A C6 or C12 amino group can be placed at the 5' or for the 3' end a C3 or C7 amino and for internal positions an amino modified base is used, e.g Amino dT C6.

Cyanine 3B (Cy3B) is an orange fluorescent dye that belongs to the Cyanine family of synthetic polymethine dyes. Cy3B is reactive, water-soluble, has an absorbance maximum of 559 nm and an emission maximum of 570 nm. It is available as an NHS ester, and is used to fluorescently label oligonucleotides at either the 5- or 3-end, or internally. Cyanine dyes normally are capable of cis/trans isomerization around the polymethine, which can lead to loss of fluorescence after excitation, and weaker signal. By contrast, Cy3B is conformationally locked, the dye is not subject to photo-isomerization and improved fluorescent properties (1,2). Consequently, Cy3B is both extremely bright and extremely stable. Cy3B can be used to substitute in any oligonucleotide-based application suitable for Cy3, such as TaqMan probes, Scorpion primers, Molecular Beacons, or Fluorescent In-Situ Hybridization. Like Cy3, Cy3B is most commonly paired with the dark quencher BHQ-2, as the two have excellent spectral overlap.

1. Cooper, M., Ebner, A., Briggs, M., Burrows, M., Gardner, N., Richardson, R., West, R. Cy3B: improving the performance of cyanine dyes.J. Fluoresc. (2004), 14: 1145-150.
2. Hall, L.M., Gerowska, M., Brown, T. A highly fluorescent DNA toolkit: synthesis and properties of oligonucleotides containing new Cy3, Cy5, and Cy3B monomers. Nucleic Acids Res. (2012), 40: e108.
- Cy3B

Oligonucleotide Synthesis |  Flourescent Molecular Probes |  Gene Detection Systems |  Tools & Reagents |  Gene Assays |  RNAi
© 2021 Gene Link |  Terms & Conditions |  Licenses |  Privacy Policy |  January 24, 2021 1:29:02 AM