Janelia Fluor® 669, SE

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Description: Far red dye (Reactive group: NHS ester). Application: confocal miocrocopy, super resolution microscopy including dSTORM & STED. Suitable for 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)
Citations (1)
Protocols (1)
Literature (1)

Biological Activity for Janelia Fluor® 669, SE

Key Information: Janelia Fluor® 669, SE is a red fluorescent dye; supplied with an NHS ester reactive group for the labeling of primary amines. Suitable for live cell imaging.

Application: Suitable for confocal microscopy, super resolution microscopy (SRM) techniques including dSTORM (in both live and fixed cells) and STED. Cell permeable.

Properties and Photophysical Data: NHS ester can be converted to relevant substrate for use in self-labeling tag systems, e.g. HaloTag® and SNAP-tag®. Excitation and emission maxima (λ) are 669 nm and 682 nm, respectively; quantum yield = 0.37; extinction coefficient = 116,000 M-1cm-1; A280 correction factor = 0.043. 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 Applications on Tubulin for Janelia Fluor® 669, SE View Larger

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

Janelia Fluor<sup>®</sup> 669, SE Dye Spectra
Emission Color Far Red
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
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
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.

Select a batch to recalculate based on the batch molecular weight:
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

Certificate of Analysis / Product Datasheet
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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.

Keywords: Janelia Fluor 669, SE, Janelia Fluor 669, SE supplier, JF669, NHS, Janelia, Fluor, 669-SE, fluorescent, dyes, ester, self-labeling, tag, systems, microscopy, cell, permeable, super, resolution, JF, 669,, Amine, Reactive, Dyes, 6420, Tocris Bioscience

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

Tocris offers the following scientific literature in this area to showcase our products. We invite you to request* your copy today!

*Please note that Tocris will only send literature to established scientific business / institute addresses.

Fluorescent Dyes and Probes Research Product Guide

Fluorescent Dyes and Probes Research Product Guide

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