Invitrogen BODIPY FL dye

Invitrogen BODIPY FL dye is a bright, green-fluorescent dye with similar excitation and emission to fluorescein (FITC) or Invitrogen Alexa Fluor 488 dye. It has a high extinction coefficient and fluorescence quantum yield and is relatively insensitive to solvent polarity and pH change. In contrast to the highly water soluble fluorophores Alexa Fluor 488 dye and fluorescein (FITC), Invitrogen BODIPY dyes have unique hydrophobic properties ideal for staining lipids, membranes, and other lipophilic compounds.

BODIPY FL dye has a relatively long excited-state lifetime (typically 5 nanoseconds or longer), which is useful for fluorescence polarization–based assays and a large two-photon cross-section for multiphoton excitation.

We offer BODIPY FL dye conjugated to a variety of antibodies, peptides, proteins, tracers, and amplification substrates optimized for cellular labeling and detection. In addition, reactive dye forms and protein labeling kits are available to allow you to generate your own protein conjugates or probes.

BODIPY FL dashboard

Initial brightness

BODIPY FL dye is a green fluorescent dye with unique hydrophobic properties ideal for staining lipids, membranes, and other lipophilic compounds.  

Photostability in buffer


Photostability in antifade


BODIPY FL dye products

We offer a broad range of BODIPY FL products, including labeling kits, secondary antibodies, bioconjugates, and more.

BODIPY signals can be amplified with an anti-dye antibody.


Stained bovine pulmonary artery endothelial cells (BPAEC), FluoCells prepared slide #2. FluoCells prepared slide #2, which shows bovine pulmonary artery endothelial cells (BPAEC) that have been stained with an anti–ß-tubulin mouse monoclonal antibody in conjunction with BODIPY FL goat anti–mouse IgG for labeling microtubules, Texas Red-X phalloidin for labeling F-actin and DAPI for labeling nuclei.

BODIPY FL reactive dyes

Select dye-labeling chemistries for conjugation with the following reactive groups: 

High-performance alternatives to BODIPY FL

Alexa Fluor 488 dye

Alexa Fluor 488 dye is a bright, green-fluorescent dye with excitation and emission wavelengths similar to those of BODIPY FL dye. For stable signal generation in imaging and flow cytometry, Alexa Fluor 488 dye is pH-insensitive over a wide concentration range.

Probes with high fluorescence quantum yield and high photostability allow detection of low-abundance biological structures with great sensitivity. Alexa Fluor 488 dye molecules can be attached to proteins at high molar ratios without significant self-quenching, enabling brighter conjugates and more sensitive detection.

Learn more about Alexa Fluor 488 dye


Molecular Probes Handbook

Cell stain tool

The significantly revised 11th Edition is the most complete fluorescence labeling and detection reference available. The Molecular Probes Handbook can help you achieve the best experimental results for your fluorescence labeling and detection experiments. View the handbook online or order your own copy.

Go to the Handbook online
Order your copy of the Handbook

Antifade reagents

Cell stain tool

Antifade reagents suppress photobleaching and preserve the signals of your fluorescently labeled target molecules. They offer excellent compatibility with a multitude of dyes across the spectrum, making them especially valuable tools for multicolor applications. For added convenience, some formulations include the nuclear counterstain DAPI, eliminating the need for a separate counterstaining step.

See the performance of this dye in SlowFade Antifade reagents
See the performance of this dye in ProLong Antifade reagents

Cell stain tool

Cell stain tool

Stain your own cell by using our simulation tool to develop reproducible results with many of our signature fluorescent dyes. Develop your multiplexing strategy for antibody probes, reactive dyes, and counterstains to create your perfectly labeled fluorescent cell.

Go to the cell stain tool

Fluorescence SpectraViewer


Plot and compare spectra and check the spectral compatibility for common fluorophores including all of the fluorescent probes from Thermo Fisher Scientific. The Fluorescence SpectraViewer tool is formatted for both microscope imaging and flow cytometry applications.

Go to the Fluorescence SpectraViewer

Not for resale. Super Bright Polymer Dyes are sold under license from Becton, Dickinson and Company.