5-TFA-aa-2'-deoxycytidine
Oligonucleotide Synthesis, RNA Raw Materials & Modification
Product summary
Quick view
- Product family
- Oligonucleotide Synthesis, RNA Raw Materials & Modification
- MF
- C14H17F3N4O5
- MW
- 378.30
- Purity
- >=98%
5-TFA-aa-2'-deoxycytidine is 2'-deoxycytidine carrying an aminoallyl amino-linker at the C5 position of cytosine, with the linker's terminal amine protected as a trifluoroacetamide (TFA). CH64059 is identified by CAS 96102-27-1, molecular formula C14H17F3N4O5, molecular weight 378.30, PubChem CID 86280299, and InChIKey WYMZPLFAGMLVFK-HFVMFMDWSA-N.
The aminoallyl arm provides a protected amine-linker motif on a 2'-deoxy nucleoside. The cited labeling literature discusses amine-linker nucleosides in covalent fluorophore attachment and indirect labeling research for nucleic acids.
Synonyms
5-(trifluoroacetamidoallyl)-2'-deoxycytidine; 5-TFA-aa-dC
Identity and specifications
| Catalog No. | CH64059 |
| CAS No. | 96102-27-1 |
| Molecular Formula | C14H17F3N4O5 |
| Molecular Weight | 378.30 |
| PubChem CID | 86280299 |
| InChIKey | WYMZPLFAGMLVFK-HFVMFMDWSA-N |
| Purity | >=98% |
Storage conditions
2-8 C
Technical attributes
- Nucleobase
- Cytosine
- Sugar
- 2'-Deoxyribose
- C5 linker
- Aminoallyl
- Amine protection
- Trifluoroacetyl (TFA)
- Packaging
- 1 g; 2 g; 5 g; 25 uL sample solution; Custom packaging on request
- Solution concentration
- 10 mM supplied sample solution
Application context
- Aminoallyl labeling research: CH64059 combines a 2'-deoxycytidine identity with a C5 TFA-protected aminoallyl linker for indirect DNA and oligonucleotide labeling studies.
- Amine-linker labeling studies: the TFA-protected aminoallyl group represents a protected amine-linker motif discussed for covalent fluorophore attachment after deprotection.
- Base-analog reference: CH64059 provides the 5-TFA-aa-2'-deoxycytidine identity for nucleoside chemistry research.
Related technical resources
Oligonucleotide Modification
Sugar, base, backbone, terminal, and conjugation modifications for ASO, siRNA, guide RNA, aptamer, and research or labeling oligo projects.
Oligonucleotide Synthesis
Support for modified monomers, supports, sulfurizing reagents, cap analogs, and related oligo synthesis inputs.
Public references
- Sustainability Challenges and Opportunities in Oligonucleotide Manufacturing
Journal of Organic Chemistry, 2021
Product-family technical context
- Solid-phase supports for oligonucleotide synthesis
Current Protocols in Nucleic Acid Chemistry, 2013
Product-family technical context
- Deoxynucleoside phosphoramidites—A new class of key intermediates for deoxypolynucleotide synthesis
Tetrahedron Letters, 1981
Product-family technical context
- Synthesis of deoxyoligonucleotides on a polymer support
Journal of the American Chemical Society, 1981
Product-family technical context
- PubChem Compound 86280299
PubChem · CID 86280299
Frequently Asked Questions
What does 'aa' (aminoallyl) mean here?
'aa' is the aminoallyl linker, a 3-aminoprop-1-enyl arm at C5. Its terminal amine is protected as a trifluoroacetamide (TFA).
How is it different from 5-TFA-ap-2'-deoxycytidine?
Both are C5 amino-linker deoxycytidines, but 'aa' is an aminoallyl arm while 'ap' is an aminopropynyl arm. Both are cataloged separately.
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