Aminoallyl-UTP-PEG5-AF555

Aminoallyl-UTP-PEG5-AF555 is an aminoallyl-modified uridine triphosphate analog bearing a PEG5 spacer and conjugated with the AF555 fluorophore. This fluorescent nucleotide is designed for post-synthetic labeling of nucleic acids, enabling incorporation into RNA or cDNA workflows followed by dye attachment through the aminoallyl handle. The AF555 dye provides bright visible fluorescence for fluorescence microscopy and flow-based readouts, supporting nucleic acid localization, tracking, and assay development where fluorescently tagged RNA is required.

1. RNA Fluorescent Labeling

Aminoallyl-UTP-PEG5-AF555 is used in fluorescent RNA labeling workflows where researchers need to visualize RNA molecules in cells or in vitro systems. Commonly, it is incorporated during in vitro transcription to generate AF555-labeled RNA probes for imaging experiments, enabling tracking of RNA distribution, uptake, and localization in microscopy studies. The PEG5 spacer helps maintain dye accessibility relative to the nucleic acid backbone, which can be beneficial for consistent labeling and fluorescence performance in nucleic acid imaging applications.

2. Oligonucleotide Probe Synthesis

Aminoallyl-UTP-PEG5-AF555 supports the construction of fluorescent nucleic acid probes for hybridization-based assays and molecular imaging reagent development. By enabling dye installation on an aminoallyl-functional nucleotide, it fits into workflows where labeled RNA or cDNA probes are generated for visualization of complementary sequences. Researchers use AF555-labeled probes to build assay-ready reagents for fluorescence-based nucleic acid analysis, including probe-driven detection formats used in molecular biology laboratories.

3. Fluorescence Microscopy Tracking

Aminoallyl-UTP-PEG5-AF555 is applied when AF555-tagged nucleic acids are needed for cellular or subcellular fluorescence microscopy. In typical microscopy workflows, fluorescently labeled RNA probes generated with this reagent are used to monitor RNA localization patterns and to support co-localization studies with other fluorescent markers. The visible emission of AF555 aligns well with standard fluorescence microscope filter sets, making it a practical choice for multi-channel imaging experiments that rely on robust, dye-based signal generation from labeled nucleic acids.

4. Flow Cytometry RNA Readouts

Aminoallyl-UTP-PEG5-AF555 is also used in flow cytometry-oriented nucleic acid workflows where fluorescent nucleic acid signals are measured on a per-cell basis. AF555-labeled RNA reagents can be used to quantify fluorescence associated with nucleic acid uptake, binding, or hybridization readouts in suspension assays. This application is particularly relevant for researchers developing fluorescence-based nucleic acid analysis protocols that translate nucleic acid labeling into quantitative flow measurements.