Ribo rSpacer Abasic Oligonucleotides

Bio-Synthesis offers Ribo rSpacer abasic oligonucleotide Synthesis at various scales. Ribo rSpacer is commonly used to mimic an abasic site in an RNA oligonucleotide. Abasic sites in RNA are not readily generated because of the greater stability of RNA to depurination.¹ However, abasic sites in RNA can also be generated by oxidative damage, and depurinationor depyrimidination by chemical and enzymatic pathways. Abasic sites in RNA are 15 fold more stable than DNA abasic sites and have an effect on RNA structure and activity.² Studies have used the hairpin ribozyme, which catalyzes a phosphodiester cleavage reaction. When abasic sites are introduced in various positions of the ribozyme core, ribozyme activity is greatly reduced. Interestingly, ribozyme activity could be rescued at least partially by the addition of nucleobases, and the relative ability of the nucleobases, to restore ribozyme activity could be used to probe ribozyme function and structure.³

dSpacer is used as an abasic site mimic in synthetic oligonucleotides because not only is it structurally very similar to the natural site, but it is also considerably more stable, and thus can tolerate the chemical conditions used in oligo synthesis and purification. One or more consecutive dSpacer modifications can also be used to provide varying amounts of separation between different parts of an oligo sequence.

Contact Bio-Synthesis for Ribo rSpacer Abasic Oligonucleotides Service.

Purification:

Spacer modified oligonucleotide can be accomplished by various methods. Desalting or cartridge purification is acceptable, however, additional purification by HPLC is strongly recommended.

Price:

Price/modification. A 10% discount for more than two spacer modifications is applied.

1. Kochetkov, N.K., Budovskii, E.I. Hydrolysis of N-glycosidic bonds in nucleosides, nucleotides and their derivatives. In Organic Chemistry of Nucleic Acids New York: Plenum; (1993). pp. 425-448.
2. Kupfer, P.A., Leumann, C.J. The chemical stability of abasic RNA compared to abasic DNA. Nucleic Acids Res. (2007), 35: 58-68.
3. Peracchi, A., Beigelman, L., Usman, N., Herschlag, D. Rescue of abasic hammerhead ribozymes by exogenous addition of specific bases. Proc. Natl. Acad. Sci. USA. (1996), 93: 11522-11527.