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Submit ReviewJanelia Fluor® 635, SE
Description: Red dye (Reactive group: NHS ester). Applications: super resolution microscopy, confocal, flow and live cell imaging
Alternative Names: JF 635, NHS
Chemical Name: 1-[10-[2-Carboxy-5-[[(2,5-dioxo-1-pyrrolidinyl)oxy]carbonyl]phenyl]-9,9-dimethyl-7-[1-(3-fluoroazetidinyl)]-9-silaanthracen-2(9H)-ylidene]-3-fluoroazetidinium, inner salt
Purity: ≥95% (HPLC)
Biological Activity for Janelia Fluor® 635, SE
Janelia Fluor® 635, SE is a red fluorogenic 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). Also suitable for flow cytometry. Cell permeable. Excitation maximum = 635 nm; emission maximum = 652 nm; Quantum yield = 0.56; Max extinction coefficient = 167,000 M-1cm-1 (measured in Ethanol or TFE plus 0.1% TFA); Correction factor = 0.0524. Exhibits low nonspecific background staining.
Please see the protocol for further information on protein/antibody labeling and conjugation.
To measure the absorbance spectrum of this dye we recommend the following solvent: ethanol or trifluoroethanol plus 0.1% TFA.
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 mitochondria for Janelia Fluor® 635, SE. Application of Janelia Fluor® 635, SE dye on mitochondria; Left: Mitochondria were labeled with anti-TOM20 primary antibodies. The secondary antibodies were conjugated to JF 635 dye. Maximum intensity projection of confocal z-stack, recorded on an Olympus FV1200 confocal microscope. 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® 635, SE
| Emission Color | Red |
|---|---|
| Brightness | |
| λabs | 635 nm |
| λem | 652 nm |
| Extinction Coefficient (ε) | 167,000 M-1cm-1 |
| Quantum Yield (φ) | 0.56 |
| Closest Laser line | 635 nm |
| Reactive Group | NHS ester |
| Reactivity | Primary amines |
| Cell Permeable | Yes |
| Correction Factor 280 | 0.0524 |
| Application | Confocal Microscopy, Super Resolution Microscopy, Flow Cytometry |
| Alternative For | Alexa Fluor® 633, Atto 633, CF633 |
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® 635, SE
| M. Wt | 629.69 |
| Formula | C33H29F2N3O6Si |
| Storage | Store at -20°C |
| Purity | ≥95% (HPLC) |
| PubChem ID | 132470914 |
| InChI Key | YVKNNZJUJGADIJ-UHFFFAOYSA-N |
| Smiles | O=C(ON1C(CCC1=O)=O)C2=CC=C(C([O-])=O)C(C(C3=CC=C(N4CC(F)C4)C=C3[Si]5(C)C)=C(C=C/6)C5=CC6=[N+]7CC(F)C\7)=C2 |
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® 635, SE
| Solvent | Max Conc. mg/mL | Max Conc. mM | |
|---|---|---|---|
| Solubility | |||
| DMSO | 62.97 | 100 |
Preparing Stock Solutions for Janelia Fluor® 635, SE
The following data is based on the product molecular weight 629.69. 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 |
|---|---|---|---|
| 1 mM | 1.59 mL | 7.94 mL | 15.88 mL |
| 5 mM | 0.32 mL | 1.59 mL | 3.18 mL |
| 10 mM | 0.16 mL | 0.79 mL | 1.59 mL |
| 50 mM | 0.03 mL | 0.16 mL | 0.32 mL |
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Product Datasheets for Janelia Fluor® 635, SE
References for Janelia Fluor® 635, 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
If you know of a relevant reference for Janelia Fluor® 635, SE, please let us know.
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Citations for Janelia Fluor® 635, SE
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Protocols for Janelia Fluor® 635, SE
The following protocol features additional information for the use of Janelia Fluor® 635, SE (Cat. No. 6419).
Literature in this Area
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Fluorescent Dyes and Probes Research Product Guide
This product guide provides a background to the use of Fluorescent Dyes and Probes, as well as a comprehensive list of our:
- Fluorescent Dyes, including dyes for flow cytometry
- Fluorescent Probes and Stains, including our new MitoBrilliantTM mitochondria stains
- Tissue Clearing Kits and Reagents
- Aptamer-based RNA Imaging Reagents
- Fluorescent Probes for Imaging Bacteria
- TSA VividTM Fluorophore Kits
- TSA Reagents for Enhancing IHC, ICC & FISH Signals