Alexa 647 Oligo Labeling

Alexa Fluor® 647 (AF647) is a premium far-red fluorescent dye designed for high-sensitivity fluorescence imaging and detection. It combines exceptional brightness, excellent quantum yield, and outstanding resistance to photobleaching, making it one of the most widely used fluorophores for advanced fluorescence microscopy, molecular diagnostics, and single-molecule imaging.

Alexa Fluor 647 is commonly conjugated to DNA, RNA, PNA, LNA, siRNA, antisense oligonucleotides (ASOs), aptamers, peptides, proteins, and other amino-modified biomolecules through NHS ester chemistry, producing a stable amide linkage with primary amino groups. Depending on the experimental design, the dye may also be introduced using click chemistry or other site-specific conjugation strategies.

The dye exhibits excitation and emission maxima of approximately 650 nm and 668 nm, respectively, making it compatible with 633 nm, 635 nm, and 640 nm laser systems commonly found on confocal microscopes, flow cytometers, fluorescence microscopes, and super-resolution imaging platforms. Alexa Fluor 647 provides excellent spectral separation from Alexa Fluor® 488, Alexa Fluor® 555, Alexa Fluor® 594, Cy3™, and FITC, making it particularly valuable for multicolor imaging and multiplex detection.

Because of its outstanding photophysical properties, Alexa Fluor 647 is one of the preferred fluorophores for single-molecule localization microscopy (SMLM), STORM, dSTORM, and other super-resolution imaging techniques.

Alexa Fluor 647-labeled oligonucleotides are widely used for:

• Fluorescence microscopy
• Confocal microscopy
• Super-resolution microscopy (STORM, dSTORM)
• Fluorescence in situ hybridization (FISH)
• Flow cytometry
• Live-cell imaging
• Molecular diagnostics
• RNA and DNA imaging
• Aptamer imaging
• Multiplex fluorescence assays

Bio-Synthesis offers custom Alexa Fluor® 647-labeled oligonucleotides for DNA, RNA, PNA, LNA, siRNA, ASOs, molecular beacons, aptamers, and other synthetic nucleic acids. Alexa Fluor 647 can be incorporated at the 5′ end, 3′ end, or internal amino-modified positions, and may be combined with numerous additional modifications including quenchers, biotin, thiol modifiers, amino modifiers, PEG linkers, click chemistry handles, GalNAc, cholesterol, peptides, lipid conjugates, and other custom chemistries.

Each labeled oligonucleotide is synthesized under stringent quality standards and is available with optional HPLC purification, together with analytical characterization by HPLC, LC-MS, MALDI-TOF, UV-Vis spectroscopy, and fluorescence analysis to verify labeling efficiency, sequence identity, and product purity.

Alexa Fluor® is a registered trademark of Thermo Fisher Scientific. Equivalent far-red fluorophores may be available upon request for applications requiring alternative dyes or specific licensing considerations.

 

Product Information

 

Product Name:

Alexa 647 Oligo Labeling

Category:

Fluorescent dye Label, Cy5

Modification Code:

[Alexa647]

Excitation (nm):

650 nm

            

Emission (nm):

665 nm

            

Structure:

Purification:

Dual HPLC required

Delivery Format:

Lyophilized

Shipping Conditions:

Room Temperature

Storage Conditions:

-20°C To -70°C
Oligonucleotides are stable in solution at 4°C for up to 2 weeks. Properly reconstituted material stored at -20°C should be stable for at least 6 months. Dried DNA (when kept at -20°C) in a nuclease-free environment should be stable for years.

References/Citations:

1. Thermo Fisher Scientific. Alexa Fluor® 647 Dye Technical Information. Thermo Fisher Scientific
2. Panchuk-Voloshina N, Haugland RP, Bishop-Stewart J, et al. Alexa dyes, a series of new fluorescent dyes that yield exceptionally bright, photostable conjugates. Journal of Histochemistry & Cytochemistry. 1999;47(9):1179-1188. DOI: 10.1177/002215549904700909
3. Rust MJ, Bates M, Zhuang X. Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM). Nature Methods. 2006;3(10):793-796. DOI: 10.1038/nmeth929
4. Hermanson GT. Bioconjugate Techniques. 3rd ed. Academic Press; 2013.

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