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Oligo Modifications List | Oligo Modifications Reference Category
Modification : 2'-O methyl C
Reference Catalog Number 27-6410C
Category Nuclease Resistance
Modification Code mC
5 Prime Y
3 Prime Y
Internal Y
Molecular Weight (mw) 319.21
Extinction Coeficient (ec) 7.2
Technical Info (pdf) PS27-6410.pdf
Catalog NoScalePrice
27-6410C-0550 nmol$6.00
27-6410C-02200 nmol$8.00
27-6410C-011 umol$16.00
27-6410C-032 umol$28.00
27-6410C-1010 umol$102.00
27-6410C-1515 umol$148.00

Discounts are available for 2'-O methyl C!
Modification* Discount Price Structure
1 site/order List price
2 sites/order 10% discount
3 sites/order 20% discount
4 sites/order 30% discount
5-9 sites/order 50% discount
10+ sites/order 60% discount
*Exceptions apply

Related Modifications
dU
2'-F-C
2'-MOE-U
2'-MOE-A
propyne dU
2'-O methyl G
2'-O methyl U
pseudoU-2'deoxy
8-Amino-dG
2'-O Me-5-Me-dC
2'-F-A
2'-MOE-G
8-amino-dA
Thio 6-dG (s6dG)
7-deaza-dX
5-Me dC
2'-F Bases
2'-F-U
2'-O methyl Inosine
2'-O methyl A
2'-F-G
2'-MOE-C
2'-MOE- Bases
2'-O methyl bases
2'-O methyl C

2’-O-Methyl cytosine C is classified as a 2’-O-Methyl RNA monomer. 2’-O-Methyl nucleotides are most commonly used to confer nuclease resistance to an oligo designed for anti-sense, siRNA or aptamer-based research, diagnostic or therapeutic purposes, when specific 2’-OH is not required. Nuclease resistance can be further enhanced by phosphorothiolation of appropriate internucleotide linkages within the oligo.

The hydrogen bonding behavior of a 2’-O-Methyl RNA/RNA base pair is closer to that of an RNA/RNA base pair than a DNA/RNA base pair. Consequently, the presence of 2’-O-Methyl nucleotides improves duplex stability. Indeed, incorporation of a 2’-O-Methyl nucleotide into an anti-sense oligo (resulting in a 2’-O-Methyl RNA/DNA chimeric), lead to a increase in the Tm of its duplex with RNA, relative to that formed by an unmodified anti-sense DNA oligo, of 1.3°C per 2’-O-Methyl RNA residue added (2). Moreover, from a synthesis standpoint, the coupling efficiency of 2’-O-Methyl phosphoramidites are higher than those of RNA monomers, resulting in higher yield of full-length oligos.

References
1. Cotton, M.; Oberhauser, B.; Burnar, H. et al. 2’O methyl and 2’O ethyl oligoribonucleotides as inhibitors of the in vitro U7 snRNP-dependent messenger-RNA processing event. Nucleic Acids Res. (1991) , 19:2629-2635.
2. Kawasaki, A.M. et al., Uniformly modified 2'-deoxy-2'-fluoro phosphorothioate oligonucleotides as nuclease resistant antisense compounds with high affinity and specificity for RNA targets, Journal of Medicinal Chemistry (1993), 36: 831-841.
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