2'-OMe-5-Br-U-CE Phosphoramidite

5'-Dimethoxytrityl-5-bromo-Uridine,2'-O-methyl,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite

Product Specifications

Formula:
C40H48BrN4O9P
M.W.:
839.72
F.W.:
399.09
To Retrieve a Catalog Number, Select a Pack Size and Format:

Description

To aid in the evaluation of the structures of 2'-OMe-RNA complexes, we offer several CE phosphoramidites. 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.

Details

Usage

  • Coupling: Dissolve in 3 parts DCM, then add 1 part Acetonitrile. A 6 minute coupling time is recommended.
  • Deprotection: Mild deprotection: Ammonium Hyrdoxide for 24 hours at room temperature.
Specifications
Diluent DCM:Acetonitrile (3:1)
Storage Freezer storage, -10 to -30°C, dry
Stability 2-3 days


Dilution/Coupling Data

The table below show pack size data and, for solutions, dilution and approximate coupling based on normal priming procedures.

ABI 392/394

Catalog # Pack Size Grams/Pack 0.1M Dil. (mL) Approximate Number of Additions
LV40 LV200 40nm 0.2μm 1μm 10μm
10-3190-02 0.25 g .25grams 2.98 86 51.6 32.25 23.45 17.2 4.3
10-3190-90 100 µmol .084grams 1 20 12 7.5 5.45 4 1

Expedite

Catalog # Pack Size Grams/Pack Dilution (mL) Approximate Number of Additions
Molarity 50nm 0.2μm 1μm 15μm
10-3190-02 0.25 g .25grams 4.44 0.07 82.4 51.5 37.45 5.15
10-3190-90 100 µmol .084grams 1.5 0.07 23.6 14.75 10.73 1.48