| Field | Specification |
|---|---|
| Applications | |
| Molecular weight | |
| Molecular formula | C43H51Li4N6O20P3S2 |
| Purity | |
| SMILES | |
| Form | Liquid |
| Storage | |
| Shipping | |
| Catalog no. (Mfr.) | |
| Main SKU |
Compound Overview
Cy3-dCTP is a deoxyribonucleotide directly labeled with the cyanine fluorescent dye Cy3. DNA polymerases incorporate this modified nucleotide into the growing DNA strand, allowing it to be used for direct enzymatic labeling of DNA and cDNA during nick translation, random primer labeling, PCR, or reverse transcription[1][2]. It is supplied as a pink to red liquid (C43H51Li4N6O20P3S2, MW 1156.71) at 98.70% purity.
Physical & Chemical Properties
| Molecular Formula | C43H51Li4N6O20P3S2 |
|---|---|
| Molecular Weight | 1156.71 g/mol |
| Purity | 98.70% |
| Appearance | Liquid |
| Color | Pink to red |
| SMILES | O=S(C1=CC2=C(C=C1)C(C)(C)C(/C=C/C=C3N(CCCCCC(NCC#CC4=CN(C5OC(COP(OP(OP(O[Li])(O[Li])=O)(O[Li])=O)(O[Li])=O)C(O)C5)C(N=C4N)=O)=O)C6=C(C=CC(S(=O)(O)=O)=C6)C/3(C)C)=[N+]2CC)([O-])=O |
| Signaling Pathway | Cell Cycle/DNA Damage |
| Storage | Solution, -20°C, protect from light, 2 years. |
| Shipping | Room temperature in continental US; may vary elsewhere. |
Literature Cited
Sources cited in this description and in the In Vitro & In Vivo Data tab. Peer-reviewed publications that used this product are listed under References.
Safety
For Research Use Only. Not for use in diagnostic or therapeutic procedures, and not for human or veterinary use. Handle in accordance with the Safety Data Sheet and your institution's chemical hygiene plan.
In Vitro
Guide: the protocol below is a recommended starting point and can be modified to fit specific needs. Specific steps differ by application, but a standard direct labeling protocol (e.g., for microarrays or FISH) usually passes through these stages: 1. Reaction Setup 1.1 Combine the template (DNA or RNA) with primers, e.g., oligo dT or random hexamers. 1.2 Make a dNTP mix in which part of the natural dCTP is swapped for Cy3-dCTP. 1.3 Recommended Ratio: Use about 30–50% Cy3-dCTP with 50–70% unlabeled dCTP, which balances labeling efficiency against enzyme processivity. 2. Enzymatic Incorporation 2.2 Add a suitable enzyme, such as Klenow fragment (DNA), Reverse Transcriptase (RNA), or Taq polymerase (PCR). 2.3 Incubate at the optimal temperature for the enzyme (e.g., 37°C for Klenow/RT, or cycling for PCR). 3. Stopping and Purification - 3.1 Stop the reaction with EDTA or by heat inactivation. 3.2 Crucial Step: Clear out unincorporated nucleotides with a spin column, ethanol precipitation, or centrifugal filters, which keeps background fluorescence low in downstream applications. 4. Analysis: 4.1 Determine the concentration and labeling efficiency (dye incorporation) on a spectrophotometer such as a NanoDrop. 4.2 Measure absorbance at 260 nm (for DNA) and at 550 nm (for Cy3).
Data provided by the manufacturer.
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