Janelia Fluor® 669, SE

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Cat.No. 6420 - Janelia Fluor 669, SE | C34H30F3N3O6SSi | CAS No. 2127150-20-1
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
Protocols (1)
Literature (1)

Biological Activity

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.

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.

Licensing Information

Sold under license from the Howard Hughes Medical Institute, Janelia Research Campus

Application of Janelia Fluor® 669, SE dye on Tubulin

Janelia Fluor® 669, SE Dye-labeled TubulinJanelia Fluor® 669, SE Dye-labeled Tubulin

Application of Janelia Fluor® 669, SE dye on Tubulin; Left: Microtubules were labeled with anti-α-tubulin primary antibodies. The secondary antibodies were conjugated to JF 669. Maximum intensity projection of confocal z-stack, recorded with an Olympus FV1200 confocal microscope, using 638 nm laser line forJF 669. Right: Enlarged portion of left-hand image.

Images kindly provided by Dr Kirstin Elgass, Monash University

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 fluorescent imaging, 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.

Technical Data

M. Wt 693.77
Formula C34H30F3N3O6SSi
Storage Store at -20°C
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

Solvent Max Conc. mg/mL Max Conc. mM
DMSO 13.88 20

Preparing Stock Solutions

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

Molarity Calculator

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*When preparing stock solutions always use the batch-specific molecular weight of the product found on the vial label and SDS / CoA (available online).

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Product Datasheets

Certificate of Analysis / Product Datasheet
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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, Flow, Cytometry, 6420, Tocris Bioscience

Citations for Janelia Fluor® 669, SE

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

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