Product overview

Name Janelia Fluor® 549, Azide
Biological description

Cell-permeable, yellow fluorescent dye supplied as an azide for click chemistry. Suitable for confocal microscopy and super resolution microscopy (SRM) including techniques such as dSTORM (both live and fixed cells) and STED. Also suitable for flow cytometry. Janelia Fluor® 549 is 2 x brighter than TMR and Cy3 in vitro and live-cell experiments.

Spectrally similar dyes: Alexa Fluor® 546, Alexa Fluor® 555, BDY TMR-X, Atto 550, CF 555, TAMRA, Cyanine 3

Alternative names JF549, Azide

Yellow dye supplied as an azide for click chemistry. Suitable for dSTORM, STED, confocal microscopy, live cell imaging and flow cytometry.

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Fig1. Excitation and emission spectra of Janelia Fluor ® 549, azide.

Figure1. Excitation and emission spectra of Janelia Fluor © 549, azide. Janelia Fluor® 549 is a yellow fluorescent dye suitable for confocal and super resolution microscopy. A 1 µM solution was prepared in PBS before excitation, emission and absorbance spectra were generated. For protocol see #Protocol 1 in application notes below.

Optical Data

Reactivity Click chemistry
Emission color Yellow
Max excitation wavelength 549 nm
Max emission wavelength 571 nm
Quantum Yield (φ) 0.88
Extinction Coefficient (ε) 101,000 M-1cm-1
Cell permeable Yes
Reactive Group Azide

Biological Data

Application notes

#Protocol 1: Measurement of excitation and emission spectra of Janelia Fluor ® 549, azide

  • Janelia Fluor® 549, azide was prepared at 1µm in PBS.
  • Spectra were generated on a Tecan Infinite M200 PRO using the following parameters:
    • Excitation: Recording at 638nm while exciting between 280nm and 610nm
    • Emission: Exciting at 509nm while recording between 535nm and 800nm
    • Absorbance: Measured between 300 and 800nm

Solubility & Handling

Storage instructions -20°C
Solubility overview Soluble in DMSO
Important This product is for RESEARCH USE ONLY and is not intended for therapeutic or diagnostic use. Not for human or veterinary use



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Chemical Data

Chemical name 3,6-Di-1-azetidinyl-9-[5-[[2-[2-[2-[2-azidoethoxy]ethoxy]ethoxy]ethyl]carbamoyl]-2-carboxyphenyl]xanthylium, inner salt
Molecular Weight 654.71
Chemical structure  Janelia Fluor® 549, Azide Chemical Structure
Molecular Formula C35H38N6O7
PubChem identifier 137919860
SMILES O=C(NCCOCCOCCOCCN=[N+]=[N-])C1=CC=C(C([O-])=O)C(C(C2=CC=C(N3CCC3)C=C2O4)=C(C=C/5)C4=CC5=[N+]6CCC\6)=C1
Source Synthetic
Licensing details

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

Excitation 549 nm
Emission 571 nm

References for Janelia Fluor® 549, Azide

References are publications that support the biological activity of the product
  • A general method to improve fluorophores for live-cell and single-molecule microscopy.

    Grimm JB et al (2015) Nature methods 12 : 244-50, 3 p following 250

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