DY647 CEP [DyLight 647 phosphoramidite]

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Physical properties

Molecular weight	782.79
Solvent	MeCN

Spectral properties

Extinction coefficient (cm ^-1 M ^-1)	250000¹
Excitation (nm)	652
Emission (nm)	673

Storage, safety and handling

H-phrase	H303, H313, H333
Hazard symbol	XN
Intended use	Research Use Only (RUO)
R-phrase	R20, R21, R22
Storage	Freeze (< -15 °C); Minimize light exposure
UNSPSC	12171501

Overview SDS Protocol

Molecular weight

782.79

Extinction coefficient (cm ^-1 M ^-1)

250000¹

Excitation (nm)

652

Emission (nm)

673

DY647 CEP (DyLight 647 phosphoramidite) is an excellent replacement to the commonly used Cy5 phosphoramidite. Two cyanine derivatives, Cy3 and Cy5 phosphoramidites, are the most popular fluorescent labeling reagents for preparing fluorescence-labeled oligonucleotides. However, both Cy3 and Cy5 phosphoramidites are not very stable. DY647 CEP appears to be more stable than Cy5 phosphoramidite. As Cy3 and Cy5 phosphoramidites, the deprotection of oligos containing DY647 CEP may be carried out with ammonium hydroxide at room temperature, regardless of the base protecting groups on the monomers used. However, it is always prudent to use monomers with base labile protecting groups to limit the exposure time to 2 hours or less at 65°C during deprotection.

Calculators

Common stock solution preparation

Table 1. Volume of MeCN needed to reconstitute specific mass of DY647 CEP [DyLight 647 phosphoramidite] to given concentration. Note that volume is only for preparing stock solution. Refer to sample experimental protocol for appropriate experimental/physiological buffers.

	0.1 mg	0.5 mg	1 mg	5 mg	10 mg
1 mM	127.748 µL	638.741 µL	1.277 mL	6.387 mL	12.775 mL
5 mM	25.55 µL	127.748 µL	255.496 µL	1.277 mL	2.555 mL
10 mM	12.775 µL	63.874 µL	127.748 µL	638.741 µL	1.277 mL

Molarity calculator

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Mass (Calculate)		Molecular weight		Volume (Calculate)		Concentration (Calculate)		Moles
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Spectrum

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Spectral properties

Extinction coefficient (cm ^-1 M ^-1)	250000¹
Excitation (nm)	652
Emission (nm)	673

Product Family

Name	Excitation (nm)	Emission (nm)	Extinction coefficient (cm ^-1 M ^-1)
DY547 CEP [DyLight 547 phosphoramidite]	558	574	150000¹

Images

Figure 1. Chemical structure for DY647 CEP [DyLight 647 phosphoramidite].

References

View all 3 references: Citation Explorer

Resonance energy transfer in DNA duplexes labeled with localized dyes.
Authors: Cunningham, Paul D and Khachatrian, Ani and Buckhout-White, Susan and Deschamps, Jeffrey R and Goldman, Ellen R and Medintz, Igor L and Melinger, Joseph S
Journal: The journal of physical chemistry. B (2014): 14555-65

A highly fluorescent DNA toolkit: synthesis and properties of oligonucleotides containing new Cy3, Cy5 and Cy3B monomers.
Authors: Hall, Lucy M and Gerowska, Marta and Brown, Tom
Journal: Nucleic acids research (2012): e108

Hairpin-like fluorescent probe for imaging of NF-κB transcription factor activity.
Authors: Metelev, Valeri and Zhang, Surong and Tabatadze, David and Bogdanov, Alexei
Journal: Bioconjugate chemistry (2011): 759-65