CAL Fluor Red 610 CE Phosphoramidite | CAS 861143-34-2

CAL Fluor Red 610 CE Phosphoramidite is a red-emitting fluorophore phosphoramidite designed for incorporation into oligonucleotides during solid-phase synthesis, enabling fluorescence labeling of nucleic acids for molecular imaging and analytical assays. With its dye suitable for excitation in the red spectral region, it is commonly used to generate traceable DNA/RNA probes, primers, and hybridization reporters where robust fluorescence readout from labeled oligos is required. The phosphoramidite format supports straightforward integration into custom probe architectures for fluorescence-based nucleic acid workflows.

1. Oligonucleotide Hybridization Probes

CAL Fluor Red 610 CE Phosphoramidite is used to build fluorescence hybridization probes for detecting complementary nucleic acid sequences in research and assay development settings. Researchers incorporate the dye into single-stranded DNA or RNA probes to visualize binding events by fluorescence microscopy, plate-based fluorescence readout, or capillary/gel-based analysis, depending on the probe design and labeling position. This labeling strategy is particularly useful when a red-emitting reporter is preferred for multiplexing or when background reduction benefits from using a defined fluorescent tag on the oligonucleotide.

2. Fluorescent PCR And qPCR Primers

CAL Fluor Red 610 CE Phosphoramidite supports the development of fluorescence-based nucleic acid amplification assays by enabling dye labeling of primers and probe oligonucleotides. In assay workflows, the phosphoramidite allows the fluorophore to be positioned within primer/probe constructs so that amplification progress can be monitored through fluorescence intensity changes during thermocycling. Molecular biology teams and diagnostic reagent developers use this approach to create custom amplification reagents for method optimization, assay prototyping, and fluorescence readout compatibility with standard real-time PCR instrumentation.

3. Fluorescent In Situ Hybridization

CAL Fluor Red 610 CE Phosphoramidite is well suited for fluorescent in situ hybridization workflows where labeled oligonucleotides are used to localize target nucleic acid sequences in fixed biological samples or prepared slides. By integrating the dye into sequence-specific probes, researchers can track hybridization patterns using fluorescence microscopy and quantify spatial distribution where multi-color imaging is required. The red emission of the fluorophore supports flexible panel design alongside other stains or reporters, helping teams distinguish nucleic acid signals from cellular autofluorescence and other spectral channels.

4. Nucleic Acid Tracing Standards

CAL Fluor Red 610 CE Phosphoramidite is frequently employed to produce fluorescently labeled oligonucleotide standards for assay calibration, workflow controls, and method verification in nucleic acid analysis. Laboratories generate dye-tagged DNA/RNA constructs to validate labeling efficiency, confirm probe integrity, and benchmark fluorescence readouts across instruments such as plate readers and imaging systems. This use case benefits from the reproducible incorporation afforded by the phosphoramidite chemistry, enabling consistent fluorescent reference materials for downstream experiments.