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Oligo Synthesis

Oligo Synthesis : CEPs

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2'-OMe-3-deaza-5-aza-C-CE Phosphoramidite

2'-OMe-3-deaza-5-aza-C-CE Phosphoramidite

Glen Research

Description

2'-OMe-3-deaza-5-aza-C-CE Phosphoramidite

Structure

Catalog Number: 10-3116-xx

Description: 2'-OMe-3-deaza-5-aza-C-CE Phosphoramidite

5'-Dimethoxytrityl-N-dimethylformamidine-3-deaza-5-aza-Cytidine,
2'-O-methyl,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite
Formula: C43H55N5O9P M.W.: 816.91 F.W.: 319.21

Diluent: Anhydrous Acetonitrile
Coupling: 6 minute coupling time
Deprotection: No changes needed from standard method recommended by synthesizer manufacturer.
Storage: Refrigerated storage, maximum of 2-8°C, dry
Stability in Solution: 24 hours

minor 2’-Ome-rna phosphoramidites

To aid in the evaluation of the structures of 2’-OMe-RNA complexes, we offer the CE phosphoramidites listed below. 2’-OMe-T is useful in triplex studies while the 2-aminopurine derivative may be tested in ribozyme studies. By supporting an additional hydrogen bond, 2,6-diaminopurine (2-amino-adenosine) binds more strongly with uridine than does adenosine. Oligonucleotides containing 2’-OMe-5-Me-C and 2’-OMe-I would be of interest to researchers involved in triplex and antisense studies using 2’-OMe-RNA. The uses of 2’-OMe-5-bromo-U phosphoramidite range from crystallographic studies due to the heavy atom to cross-linking because of its photolability. 5-Fluoro-pyrimidine nucleosides have been useful as therapeutic agents and their effect on the structure and activity of oligonucleotides may be examined using the 2’-OMe-RNA derivatives. The 2,4,6-trimethylphenyl (TMP) protected 2’-OMe-U derivative is a convertible nucleoside and reaction with ammonia leads to the 5-fluoro-dC analogue. 2’-OMe-3-deaza-5-aza-C (Reverse C) derivative has the potential to mimic in oligonucleotides 5-azacytidine, a DNA methylase inhibitor. Its ability to bind as a C will likely be diminished.

ABI-style vials are supplied unless otherwise requested (see note box).

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Protocols

MSDS

Glen Report 9.1

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Applications & Benefits

DILUTION/COUPLING DATA

The table below shows pack size data and, for solutions, dilutions and approximate couplings based on normal priming procedures.

ABI 392/394
Cat.No. Pack
Size
Grams/
Pack
0.1M Dil.
(mL)
LV40 LV200 40nm 0.2µm 1µm 10µm
Approximate Number of Additions
10-3116-02 0.25grams .25grams 3.06 88.67 53.2 33.25 24.18 17.73 4.43
10-3116-90 100µmoles .082grams 1 20 12 7.5 5.45 4 1
10-3116-95 50µmoles .041grams .5 3.33 2 1.25 .91 .67 .17
Expedite
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 50nm 0.2µm 1µm 15µm
Approximate Number of Additions
10-3116-02 0.25grams .25grams 4.57 .07 85 53.13 38.64 5.31
10-3116-90 100µmoles .082grams 1.5 .07 23.6 14.75 10.73 1.48
10-3116-95 50µmoles .041grams .75 .07 8.6 5.38 3.91 .54
Beckman
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 30nm 200nm 1000nm

Approximate Number of Additions
10-3116-02 0.25grams .25grams 4.57 .07 86.6 54.13 39.36

10-3116-90 100µmoles .082grams 1.5 .07 25.2 15.75 11.45

10-3116-95 50µmoles .041grams .75 .07 10.2 6.38 4.64

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Related products

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