5-Me-dC Brancher Phosphoramidite

5'-Dimethoxytrityl-N4-(O-levulinyl-6-oxyhexyl)-5-Methyl-2'-deoxyCytidine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite

Product Specifications

Formula:

C₅₁H₆₈N₅O₁₀P

M.W.:

942.10

F.W.:

402.36

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Technical Documents

Description

Details

Dilution/Coupling Data

References

Technical Documents

Safety Data Sheet

Technical Bulletin - Synthesis of branched DNA with a comb structure.

Glen Report 18.15: Synthesis of Branched DNA with a Comb Structure

Glen Report 24.18: Technical Brief – Compatibility of UltraMild Monomers or Ac-dC with Hydrazine Reagent

Glen Report 30.24: Oligonucleotide Dendrimers – An Update

Glen Report 22.28: Technical Brief - Symmetrically Branched Four-Arm DNA

Description

A branching monomer is required to construct comb-like oligonucleotide probes. The developers of the comb system from Chiron Corporation evaluated¹ several protecting groups for the branch point and chose levulinyl (LEV), which is specifically removed using a reagent containing hydrazine hydrate, acetic acid and pyridine.

Details

Usage

Coupling: dC Brancher reacts in a manner identical to normal phosphoramidites.
Deprotection: Levulinyl Deprotection: The levulinyl protecting group can be selectively removed without cleavage of the oligonucleotide from the CPG by treatment with 0.5 M Hydrazine hydrate in 1:1 pyridine/acetic acid. [Note hydrazine hydrate is a violent poison that is both volatile and readily absorbed through skin] Fit the column with syringes and push the solution back and forth across the column. Let sit for 15 minutes at room temperature. Rinse the column with 1.5 mL of 1:1 pyridine/acetic acid (3x) and then 1.5 mL of ACN (3x). Dry CPG under a stream of argon and proceed with the synthesis of the branching sequence. If a non-branching control is desired, simply deprotect in ammonium hydroxide as required by the nucleobases.