Aminoallyl-UTP-PEG5-AF647

Aminoallyl-UTP-PEG5-AF647 is an aminoallyl-modified uridine triphosphate analog bearing a PEG5 spacer and the AF647 fluorophore, designed for fluorescent nucleic acid labeling and downstream probe construction. This reagent is commonly used to introduce a dye handle into RNA or other nucleic-acid workflows, enabling fluorescent tracking of nucleic acid behavior in microscopy and fluorescence-based assays. The AF647 dye provides compatibility with far-red fluorescence imaging and reduces spectral overlap challenges in multicolor experiments.

1. Fluorescent RNA Labeling

Aminoallyl-UTP-PEG5-AF647 is used by molecular biology and chemical biology labs to prepare fluorescently labeled RNA for imaging and binding studies. Researchers incorporate the fluorescent UTP analog during enzymatic RNA synthesis workflows to generate AF647-tagged transcripts that can be visualized in cellular or in vitro systems. The PEG5 linker helps spatially separate the bulky fluorophore from the nucleobase environment, which is often beneficial for preserving nucleic-acid hybridization behavior while still providing strong far-red fluorescence readout.

2. Fluorescence In Situ Hybridization Probes

Aminoallyl-UTP-PEG5-AF647 supports fluorescent nucleic-acid probe development for hybridization-based microscopy workflows, where labeled RNA probes are used to localize complementary sequences in fixed samples. Teams performing gene expression mapping, transcript localization, and spatial RNA studies use AF647-labeled probe strands to obtain far-red signal with reduced background relative to shorter-wavelength dyes in many imaging setups. The aminoallyl functionality is leveraged to enable robust conjugation strategies during probe preparation, improving the practicality of building consistent fluorescence probes for microscopy and slide-based analysis.

3. Nucleic Acid Hybridization Assays

Aminoallyl-UTP-PEG5-AF647 is applied in fluorescence hybridization assays that monitor nucleic-acid interactions through AF647 emission. In research settings focused on RNA binding, oligonucleotide complementarity, or nucleic-acid platform screening, labeled RNA or RNA-like probes generated with this reagent provide a direct fluorescence readout of hybridization and wash-dependent signal retention. The far-red AF647 signal is frequently chosen to support multiplexing and to align with common fluorescence detection channels used in plate readers and imaging instruments.