Cyanine3 phosphoramidite

Cyanine3 Oligonucleotide synthesis Phosphoramidites

Cat. #	Quantity	Price	Lead time
2771-100mg / in 6 mL septum	100 mg	–	in stock
2771-250mg / in 6 mL septum	250 mg	$290	in stock
2771-1g / in 6 mL septum	1 g	$950	in stock
2771-10g / in 30 mL septum	10 g	please inquire	in stock

Found better price? Let us know and we will propose the way forward!

Cyanine3 is a fluorophore that is widely used in molecular biology experiments such as oligonucleotide labeling followed by oligonucleotide detection. By its spectral characteristics, Cyanine3 is a dye with a fluorescence maximum at 570 nm in the yellow spectrum range.

Cyanine3 phosphoramidite 5’ is used in oligonucleotide synthesis for the production of 5’-cyanine3-labeled oligonucleotides. The reagent is compatible with various oligonucleotide synthesizers.

This phosphoramidite can be used for the synthesis of fluorescence-labeled primers and hybridization probes such as TaqMan and Molecular Beacon. Such labeled probes can be detected in multiplex real-time PCR in the TAMRA channel.

Usage:

Condensation: 3 min. Use 0.02 M iodine solution at the oxidation step to avoid degradation of the cyanine dye.

Deprotection: At room temperature with 30% aqueous ammonium solution. It is recommended to use nucleic bases with labile protective groups for deprotection for not more than 2 h at less than 55°C. AMA (30% aqueous ammonium solution/40% aqueous methylamine 1:1 (v/v)) can be used for 10 min at 65°C in the presence of acetyldeoxycytidine. If deoxyguanidine with a dimethylformamidine protective group is used during synthesis, deprotect with 30% aqueous ammonium solution for 2 h at 65°C. If deoxyguanidine with an isobutyryl protective group is used during synthesis, deprotect for 24-36 h at room temperature.

Download in
ChemDraw format

General properties

Appearance:	red powder
Molecular weight:	841.81
Molecular formula:	C₄₅H₆₅N₅BF₄O₃P
Solubility:	good in acetonitrile, dichloromethane
Quality control:	NMR ¹H, ³¹P, HPLC-MS (80%)
Storage conditions:	Storage: 12 months after receival at -20°C in the dark. Transportation: at room temperature for up to 3 weeks. Avoid prolonged exposure to light. Desiccate.
MSDS:	Download
	Product specifications

Spectral properties

Excitation/absorption maximum, nm:	555
ε, L⋅mol⁻¹⋅cm⁻¹:	150000
Emission maximum, nm:	570
Fluorescence quantum yield:	0.31
CF₂₆₀:	0.04
CF₂₈₀:	0.09

Oligo synthesis details

Diluent:	acetonitrile
Coupling conditions:	6 min coupling time recommended
Deprotection conditions:	recommended 48 h at +4°C or ultramild protective groups; 24 h at rt possible

Cy™ is a registered trademark of Cytiva in some countries.

This Product is offered and sold for research purposes only. It has not been tested for safety and efficacy in food, drug, medical device, cosmetic, commercial or any other use. Supply does not express or imply authorization to use for any other purpose, including, without limitation, in vitro diagnostic purposes, in the manufacture of food or pharmaceutical products, in medical devices or in cosmetic products.