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Submit ReviewJanelia Fluor® 669, SE
Description: Far red dye (Reactive group: NHS ester). Applications: super resolution microscopy e.g. dSTORM & STED, confocal and live cell imaging
Alternative Names: JF 669, NHS
Chemical Name: 1-[7-(1-Azetidinyl)-10-[2-Carboxy-5-[(2-(2,5-dioxopyrrolidin-1-yl)oxy)-2-oxoethyl]thio-3,4,6-trifluorophenyl]-9,9-dimethyl-9-silaanthracen-2(9H)-ylidene]azetidinium, inner salt
Purity: ≥90% (HPLC)
Biological Activity for Janelia Fluor® 669, SE
Janelia Fluor® 669, SE is a red fluorescent dye; supplied as an NHS ester for coupling to primary amine groups. NHS ester can be converted to relevant substrate for use in self-labeling tag systems, e.g. HaloTag® and SNAP-tag®. Suitable for confocal fluorescent imaging and super resolution microscopy (SRM) techniques, such as dSTORM (live and fixed cells). Cell permeable. Excitation maximum = 669 nm; emission maximum = 682 nm; Quantum yield = 0.37; Extinction coefficient = 116,000 M-1cm-1; Correction factor = 0.0430. Retains 97% fluorescence after 30 bleaching cycles.
Please see the protocol for further information on protein/antibody labeling and conjugation.
We also offer Janelia Fluor® conjugated antibodies and custom conjugation services with our sister company Novus Biologicals.
HaloTag is a trademark of Promega Corporation, and SNAP-tag is a trademark of New England BioLabs, Inc.
Scientific Data
Confocal Microscopy
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Applications on Tubulin for Janelia Fluor® 669, SE. Application of Janelia Fluor® 669, SE dye on Tubulin; Left: Microtubules were labeled with anti-alpha -tubulin primary antibodies. The secondary antibodies were conjugated to Janelia Fluor® 669, SE. Maximum intensity projection of confocal z-stack, recorded with an Olympus FV1200 confocal microscope, using 638 nm laser line for JF 669. Right: Enlarged portion of left-hand image. Images kindly provided by Dr Kirstin Elgass, Monash University.
Licensing Information
Sold under license from the Howard Hughes Medical Institute, Janelia Research Campus
Optical Data for Janelia Fluor® 669, SE
| Emission Color | Far Red |
|---|---|
| Brightness | |
| λabs | 669 nm |
| λem | 682 nm |
| Extinction Coefficient (ε) | 116,000 M-1cm-1 |
| Quantum Yield (φ) | 0.37 |
| Closest Laser line | 640 nm |
| Reactive Group | NHS ester |
| Reactivity | Primary amines |
| Cell Permeable | Yes |
| Correction Factor 280 | 0.043 |
| Application | Confocal Microscopy, Super Resolution Microscopy (SRM) |
| Alternative For | Alexa Fluor® 660, Atto 655, Atto 665, CF660R |
Alexa Fluor® is a registered trademark of Molecular Probes, Inc, a Thermo Fisher Scientific Company.
Plan Your Experiments
Use our spectra viewer to interactively plan your experiments, assessing multiplexing options. View the excitation and emission spectra for our fluorescent dye range and other commonly used dyes.
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Technical Data for Janelia Fluor® 669, SE
| M. Wt | 693.77 |
| Formula | C34H30F3N3O6SSi |
| Storage | Store at -20°C |
| Purity | ≥90% (HPLC) |
| CAS Number | 2127150-20-1 |
| PubChem ID | 132470916 |
| InChI Key | QFHKALIQFJQJKE-UHFFFAOYSA-N |
| Smiles | C[Si](C1=CC(N2CCC2)=CC=C1C(C3=C(F)C(SCC(ON4C(CCC4=O)=O)=O)=C(F)C(F)=C3C([O-])=O)=C5C=C/6)(C)C5=CC6=[N+]7CCC\7 |
The technical data provided above is for guidance only. For batch specific data refer to the Certificate of Analysis.
Tocris products are intended for laboratory research use only, unless stated otherwise.
Solubility Data for Janelia Fluor® 669, SE
| Solvent | Max Conc. mg/mL | Max Conc. mM | |
|---|---|---|---|
| Solubility | |||
| DMSO | 13.88 | 20 |
Preparing Stock Solutions for Janelia Fluor® 669, SE
The following data is based on the product molecular weight 693.77. Batch specific molecular weights may vary from batch to batch due to the degree of hydration, which will affect the solvent volumes required to prepare stock solutions.
| Concentration / Solvent Volume / Mass | 1 mg | 5 mg | 10 mg |
|---|---|---|---|
| 0.2 mM | 7.21 mL | 36.03 mL | 72.07 mL |
| 1 mM | 1.44 mL | 7.21 mL | 14.41 mL |
| 2 mM | 0.72 mL | 3.6 mL | 7.21 mL |
| 10 mM | 0.14 mL | 0.72 mL | 1.44 mL |
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Product Datasheets for Janelia Fluor® 669, SE
References for Janelia Fluor® 669, SE
References are publications that support the biological activity of the product.
Grimm et al (2017) A general method to fine-tune fluorophores for live-cell and in vivo imaging. Nat.Methods 14 987 PMID: 28869757
Grimm et al (2017) General synthetic method for Si-Fluoresceins and Si-Rhodamines. ACS Cent.Sci. 3 975 PMID: 28979939
Grimm et al (2020) A general method to optimize and functionalize red-shifted rhodamine dyes. Nat.Methods 17 815 PMID: 32719532
If you know of a relevant reference for Janelia Fluor® 669, SE, please let us know.
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1 Citation for Janelia Fluor® 669, SE
Citations are publications that use Tocris products. Selected citations for Janelia Fluor® 669, SE include:
Hui et al (2021) EASI-FISH for thick tissue defines lateral hypothalamus spatio-molecular organization. Cell 184 6361-6377.e24 PMID: 34875226
Do you know of a great paper that uses Janelia Fluor® 669, SE from Tocris? Please let us know.
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Protocols for Janelia Fluor® 669, SE
The following protocol features additional information for the use of Janelia Fluor® 669, SE (Cat. No. 6420).
Literature in this Area
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Fluorescent Dyes and Probes Research Product Guide
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