Amino-modified Nucleosides
3'-Azido-3'-deoxy-5-methylcytidine
Quick view. An unprotected 5-methylcytidine derivative bearing a 3'-azido-3'-deoxy sugar modification, CAS 1282040-14-5. CAS 1282040-14-5. Catalog target purity: By inquiry. Availability: Inquiry only — contact OROGO to confirm current availability.
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Product profile
3'-Azido-3'-deoxy-5-methylcytidine is classified as amino-modified nucleosides (Formula C10H14N6O4; molecular weight 282.26).
3'-Azido-3'-deoxy-5-methylcytidine is useful as a bioorthogonal handle for post-synthetic conjugation to fluorophores, affinity tags, surfaces, peptides or other functional payloads.
For 3'-Azido-3'-deoxy-5-methylcytidine, copper-catalyzed, copper-free or inverse-electron-demand click conditions can affect sensitive oligonucleotides differently; residual metal, solvent and purification strategy should be controlled.
Names and search terms
Confirmed or normalized name variants
- 4-amino-1-[(2R,3R,4S,5S)-4-azido-3-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-methylpyrimidin-2-one
Useful catalog search terms
- CAS 1282040-14-5
- PubChem CID 101644650
- MFCD30748916
Physicochemical data
| PubChem CID | 101644650 |
|---|---|
| MDL number | MFCD30748916 |
| Systematic name | 4-amino-1-[(2R,3R,4S,5S)-4-azido-3-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-methylpyrimidin-2-one |
| InChI | InChI=1S/C10H14N6O4/c1-4-2-16(10(19)13-8(4)11)9-7(18)6(14-15-12)5(3-17)20-9/h2,5-7,9,17-18H,3H2,1H3,(H2,11,13,19)/t5-,6-,7-,9-/m1/s1 |
| InChIKey | HQIDXEHGLJUNPT-JXOAFFINSA-N |
| Isomeric SMILES | CC1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO)N=[N+]=[N-])O |
| Sugar modification | 3'-azido-3'-deoxy |
| Nucleobase | 5-methylcytosine |
| SMILES | CC1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO)N=[N+]=[N-])O |
Release documentation
The current specification defines the analytical method and acceptance criteria; the released lot result is reported on the CoA.
Additional HPLC, MS or NMR documentation can be agreed during technical review where available.
Product-specific evaluation notes
Potential advantages
- Click-compatible handles separate oligonucleotide synthesis from late-stage labeling, which helps screen multiple payloads from a common intermediate.
- Reactive handles make the product adaptable across dye-labeling, surface-coupling and ligand-conjugation workflows.
Method limitations
- Copper-catalyzed, copper-free or inverse-electron-demand click conditions can affect sensitive oligonucleotides differently; residual metal, solvent and purification strategy should be controlled.
- Functional handles may require orthogonal protection, pH control and rapid purification to avoid hydrolysis, oxidation or cross-reaction.
These points describe 3'-Azido-3'-deoxy-5-methylcytidine or its named chemical feature. Broader product-family guidance is maintained on the category page.
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Feature and workflow background
These publications discuss a broader chemistry feature or workflow identified from the catalog name or product family. They are background reading only, not evidence for the exact OROGO product, supplied form, lot specification, availability or performance.
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