Spacer-C3 Phosphoramidite
Oligonucleotide Synthesis, RNA Raw Materials & Modification
Product summary
Quick view
- Product family
- Oligonucleotide Synthesis, RNA Raw Materials & Modification
- MF
- C33H43N2O5P
- MW
- 578.7
- Purity
- >=98.0% (HPLC)
Spacer-C3 Phosphoramidite is a non-nucleotide (abasic) spacer building block: a three-carbon (propyl) spacer carrying a 5'-O-(4,4'-dimethoxytrityl) group and a 3'-O-(2-cyanoethyl N,N-diisopropyl)phosphoramidite. Its PubChem-backed identity includes CAS 110894-23-0, molecular formula C33H43N2O5P, molecular weight 578.7, and PubChem CID 10303642.
Coupling inserts a non-nucleotide three-carbon spacer into the oligonucleotide backbone in place of a nucleotide — non-nucleotide chains can be incorporated into oligonucleotides this way (for example, to join segments or introduce a defined gap). The spacer couples through its 3'-phosphoramidite, and its 5'-DMT is removed each cycle so chain assembly continues.
Synonyms
DMT-O-C3-spacer 3'-CE phosphoramidite; 3-(DMTO)propyl non-nucleotide spacer amidite
Identity and specifications
| Catalog No. | CH65096 |
| CAS No. | 110894-23-0 |
| Molecular Formula | C33H43N2O5P |
| Molecular Weight | 578.7 |
| PubChem CID | 10303642 |
| InChIKey | IMRNWKAKFIGPOS-UHFFFAOYSA-N |
| Purity | >=98.0% (HPLC) |
Storage conditions
-20 C
Technical attributes
- Reagent class
- Non-nucleotide spacer phosphoramidite
- Spacer type
- Alkyl
- Spacer length
- 3 carbons
- End protection
- 5'-O-DMT
- Grade
- N (Normal)
- Packaging
- 250 mg; 100 µmol; Custom packaging on request
- Water content
- <=0.5%
- Physical form
- colorless viscous oily liquid
Application context
- Non-nucleotide spacer insertion: introduces a three-carbon abasic spacer into the oligonucleotide backbone in place of a nucleotide.
- Chain-compatible: couples through a 3'-phosphoramidite and carries a 5'-DMT that is removed each cycle, so synthesis can continue past the spacer.
- Backbone linker: non-nucleotide chains can be incorporated into oligonucleotides to join segments or introduce a defined gap.
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 10303642
PubChem · CID 10303642
Frequently Asked Questions
What is a spacer phosphoramidite?
It is a non-nucleotide (abasic) building block that inserts a spacer unit into the oligonucleotide backbone in place of a nucleotide. It couples through a 3'-phosphoramidite and carries a 5'-DMT (removed each cycle) so chain assembly continues normally.
What does the 'C3' mean?
C3 denotes the length of the spacer — a three-carbon (propyl) chain. Shorter (C2) and longer (C6, C12) variants and ethylene-glycol spacers give correspondingly different spacings.
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