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Related Experiment Video

Updated: Jul 5, 2026

Protocol for the Solid-phase Synthesis of Oligomers of RNA Containing a 2'-O-thiophenylmethyl Modification and Characterization via Circular Dichroism

Protocol for the Solid-phase Synthesis of Oligomers of RNA Containing a 2'-O-thiophenylmethyl Modification and Characterization via Circular Dichroism

Published on: July 28, 2017

Solid-phase synthesis of branched oligonucleotides.

Sandra Carriero¹, Masad J Damha

¹McGill University, Montreal, Canada.

Current Protocols in Nucleic Acid Chemistry

|April 23, 2008

Summary

This study presents a facile solid-phase synthesis of branched nucleic acids (bNAs) using phosphoramidite chemistry. These branched nucleic acids are valuable tools for studying RNA splicing and DNA/RNA biochemistry.

Area of Science:

Molecular Biology
Biochemistry
Oligonucleotide Synthesis

Background:

Branched nucleic acids (bNAs), including RNA forks, lariats, and msDNA, feature unique 2',5'- and 3',5'-phosphodiester linkages.
These structures are crucial intermediates in biological processes like mRNA splicing.

Purpose of the Study:

To develop protocols for the facile solid-phase synthesis of branched DNA and/or RNA oligonucleotides.
To enable the creation of bNAs with varying chain lengths and sequence arrangements around the branch point.
To provide tools for investigating lariat debranching enzymes and pre-mRNA splicing mechanisms.

Main Methods:

Utilized phosphoramidite chemistry for the synthesis of branched nucleic acids.
Developed methods for efficient purification using anion-exchange HPLC and PAGE.

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Protocol for the Solid-phase Synthesis of Oligomers of RNA Containing a 2'-O-thiophenylmethyl Modification and Characterization via Circular Dichroism

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Published on: July 28, 2017

Synthesis of Information-bearing Peptoids and their Sequence-directed Dynamic Covalent Self-assembly

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Chemical Triphosphorylation of Oligonucleotides

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Main Results:

Successfully synthesized branched DNA and/or RNA oligonucleotides with controlled sequence symmetry.
Demonstrated efficient purification techniques for the synthesized branched nucleic acids.

Conclusions:

The described synthetic methodology allows for the facile production of custom branched nucleic acids.
These synthesized bNAs serve as valuable tools for biochemical studies and biological probes in nucleic acid research.