The chemical stability of abasic RNA compared to abasic DNA

 Induced cross-linking reactions to target genes using modified oligonucleotides
Photo provided by Flickr

Synthesis of chemically modified DNA

The resulting hydrophobically taggedfull-length "trityl-on" oligonucleotide can be separated easily from failuresequences which lack trityl groups and do not efficiently bind the hydrophobicmatrix.

Finally, oligonucleotides may alsobe synthesized directly on solid glass supports (Cohen, G.
Photo provided by Flickr

Syringe method for stepwise chemical synthesis of oligonucleotides.

Therefore, the trityl assay procedure should beused in conjunction with HPLC or gel electrophoresis for product analysis,especially if a homogenous population of oligonucleotides is essential.

For almost all oligonucleotides, this usually requires chemicalsequencing ().
Photo provided by Flickr

Instruments take varying amounts oftime to synthesize oligonucleotides depending on the number of columnsin use, the length of the oligonucleotide, and the synthesis program.

The oligonucleotides can then be eluted with waterand desalted or further purified.
Photo provided by Flickr

Oligonucleotide synthesis - Wikipedia

It is importantthat the lines be rinsed after an empty reservoir has been detected (somemachines perform this step automatically); otherwise, the oligonucleotideshould be resynthesized.

The Chemical Synthesis of Oligonucleotides

The most time-consumingsyntheses are those involving doped oligonucleotides which require a highlevel of precision in distributing the various phosphoramidites to theappropriate bottles.

Solid-phase oligonucleotide synthesis - ATDBio

Oligonucleotides synthesized with MMT as a protectinggroup are more susceptible to depurination, since the deblocking step mustbe correspondingly lengthened to achieve complete detritylation and highyields.

Custom Oligonucleotides Synthesis - KareBay Bio

Such depurinationeventually leads to strand cleavage during the ammonia deprotection step.N-protected adenosine is more sensitive to depurination than guanosine,and it is most sensitive when located at the 5' end of an oligonucleotidechain (Tanaka and Letsinger, 1982).

RNA Oligonucleotides, RNA Oligo Synthesis

It has been recommended that oligonucleotides up to 50 basesin length should be synthesized on CPG with ~500 angstrom pores, whilelonger oligonucleotides should be synthesized on CPG with ~1000 or largerangstrom pores.

Synthesisof Oligonucleotides - Department of …

Chemical synthesis of oligodeoxyribonucleotides containing the Dewar valence isomer of the (6-4) photoproduct and their use in (6-4) photolyase studies