Description

Cy3 Phosphoramidite is a critical building block for the solid-phase synthesis of oligonucleotides labeled with the cyanine 3 (Cy3) fluorophore. This compound enables the direct, site-specific incorporation of the bright, photostable Cy3 dye into DNA or RNA sequences during automated synthesis. It is essential for researchers and manufacturers in molecular diagnostics, genomics, and pharmaceutical development who require high-performance fluorescent probes for applications like FISH, real-time PCR, and microarray analysis.

Application

• Fluorescent Probe Synthesis: Primary reagent for the automated chemical synthesis of Cy3-labeled oligonucleotides (DNA, RNA, LNA).
• Molecular Diagnostics: Manufacturing of probes for fluorescence in situ hybridization (FISH), real-time PCR (qPCR), and microarray platforms.
• Genomics & Sequencing: Preparation of labeled primers and probes for next-generation sequencing (NGS) and Sanger sequencing.
• Antisense & Therapeutic Oligonucleotides: Site-specific labeling of candidate therapeutic oligonucleotides for pharmacokinetic and biodistribution studies.
• Bioimaging & Biosensors: Creation of fluorescently tagged nucleic acid tools for live-cell imaging and sensor development.
• Academic & Contract Research: Fundamental research tool in biochemistry, cell biology, and biotechnology for studying gene expression and nucleic acid interactions.

Basic Information

Product Name	Cy3 Phosphoramidite
CAS No.	915700-76-4
Molecular Formula	C55H65N4O7P
Molecular Weight	909.10 g/mol
Synonyms	Cy3 Phosphoramidite; Cy3-CE Phosphoramidite; 5'-Cy3 Phosphoramidite; Cyanine3 Phosphoramidite; 6-(2,3,4,5,6-Pentahydroxyhexyl)-3,3-dimethyl-2-((1E,3E)-5-((1E,3E)-3-(1,3-dihydro-3,3-dimethyl-1-propyl-2H-indol-2-ylidene)-1-propen-1-yl)-1,3-pentadien-1-yl)-3H-indolium N-succinimidyl ester Phosphoramidite; 1-(6-((Bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-3-((2-cyanoethoxy)(diisopropylamino)phosphino)-2,3-dihydroxypropyl)-3,3-dimethyl-2-((1E,3E,5E)-5-(1,3-dihydro-3,3-dimethyl-1-propyl-2H-indol-2-ylidene)penta-1,3-dien-1-yl)-3H-indol-1-ium
EINECS	Contact for details

Quality Control

Our Cy3 Phosphoramidite is manufactured under strict quality control protocols to ensure batch-to-batch consistency and high coupling efficiency. Each lot is characterized by HPLC, NMR, and mass spectrometry to confirm identity, purity, and performance. Certificates of Analysis (COA) with detailed chromatographic data are provided. We support compliance with relevant quality frameworks for research and in vitro diagnostic use.

Storage

Preserve in a tightly closed container, protected from light. Store desiccated at -20°C or below under an inert atmosphere (argon or nitrogen). This product is hygroscopic (moisture-sensitive) and light-sensitive. Allow the sealed vial to equilibrate to room temperature before opening to prevent condensation.

Specification

Item	Specification
Appearance	Dark blue to purple solid or film
Identification (HPLC)	Conforms to reference standard
Identification (NMR)	Conforms to structure
Purity (HPLC)	≥ 95.0%
Water Content (KF)	≤ 1.0%
Coupling Efficiency Test	Pass

Note: Specifications can be tailored. Please contact us for the detailed technical data sheet of a specific grade.