Janelia Fluor® 646, SE
Chemical Name: 1-[7-(1-Azetidinyl)-10-[2-carboxy-5-[[(2,5-dioxo-1-pyrrolidinyl)oxy]carbonyl]phenyl]-9,9-dimethyl-9-silaanthracen-2(9H)-ylidene]azetidinium, inner salt
Purity: ≥95%
Biological Activity
Janelia Fluor® 646, SE is a 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, super resolution microscopy (SRM) techniques such as dSTORM (live and fixed cells) and STED imaging. Can be multiplexed for two colour imaging with Janelia Fluor® 549 SE (Cat. No. 6147). Also suitable for flow cytometry. Cell permeable. Excitation maximum = 646 nm; emission maximum = 664 nm. Quantum yield = 0.54, Max. extinction coefficient = 152,000 M-1cm-1 (measured in TFE plus 0.1% TFA); A280 correction factor is 0.19.Please see the protocol for further information on protein/antibody labeling and conjugation.
We recommend that stock solutions of this dye are prepared in anhydrous DMF.
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
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Application of Janelia Fluor® 646, SE in Cardiac Tissue. Super-resolution image (dSTORM) of muscle tissue from the left ventricle of an adult pig heart. Janelia Fluor 646, SE was used to label collagen VI, which is present on the cell plasma membrane, and imaged with a 642 nm excitation laser. A clearer structure is achieved in comparison with the widefield image (top right). Scale: 2 μm.Image kindly provided by Prof. Christian Soeller, University of Exeter; acquired by Alex Clowsley and Anna Meletiou.
Optical Data for Janelia Fluor® 646, SE
| Emission Color | Red |
|---|---|
| Brightness | |
| λabs | 646 nm |
| λem | 664 nm |
| Extinction Coefficient (ε) | 152,000 M-1cm-1 |
| Quantum Yield (φ) | 0.54 |
| Closest Laser line | 640 nm |
| Reactive Group | NHS ester |
| Reactivity | Primary amines |
| Cell Permeable | Yes |
| Correction Factor 280 | 0.19 |
| Application | Confocal imaging, dSTORM, STED, Flow Cytometry |
| Alternative For | Alexa Fluor® 647, Atto 647, Atto 647N, CF640R, CF647, Cyanine 5 |
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.
Spectral Viewer
Technical Data
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.
Additional Information
Background References
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Real-time imaging of Huntingtin aggregates diverting target search and gene transcription.
Li et al.
eLife, 2016;5:e17056 -
Phosphorylation of the RNA polymerase II C-terminal domain by TFIIH kinase is not essential for transcription of Saccharomyces cerevisiae genome.
Hong et al.
Proc.Natl.Acad.Sci.USA., 2009;106:14276 -
A general method to improve fluorophores for live-cell and single-molecule microscopy.
Grimm et al.
Nat.Methods, 2015;12:244 -
Live cell imaging reveals the dynamics of telomerase recruitment to telomeres.
Schmidt et al.
Cell, 2016;166:1188 -
High-density three-dimensional localization microscopy across large volumes.
Legant et al.
Nat.Methods, 2016;13:359 -
CASFISH: CRISPR/Cas9-mediated in situ labeling of genomic loci in fixed cells.
Deng et al.
Proc.Natl.Acad.Sci.USA., 2015;112:11870 -
Single-molecule studies of origin licensing reveal mechanisms ensuring bidirectional helicase loading.
Ticau et al.
Cell, 2015;161:513
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Citations for Janelia Fluor® 646, SE
The citations listed below are publications that use Tocris products. Selected citations for Janelia Fluor® 646, SE include:
5 Citations: Showing 1 - 5
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Docking of Syk to FcεRI is enhanced by Lyn but limited in duration by SHIP1.
Authors: Bridget S Et al.
Mol Biol Cell 2022;33:ar89
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Nanoscale segregation of channel and barrier claudins enables paracellular ion flux.
Authors: Nina Et al.
Nat Commun 2022;13:4985
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SNX19 restricts endolysosome motility through contacts with the endoplasmic reticulum.
Authors: Juan S Et al.
Nat Commun 2021;12:4552
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Molecular mechanism for direct actin force-sensing by α-catenin.
Authors: Rachel Et al.
Elife 2020;9
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High-speed single molecule imaging datasets of membrane proteins in rat basophilic leukemia cells.
Authors: Diane S Et al.
Data Brief 2020;30:105424
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