2'-OMe-Pac-A-CE Phosphoramidite

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10-3601

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

Formula:
C49H56N7O9P
M.W.:
917.99
F.W.:
343.24
Catalog: Make Selections to Reveal

Description

The use of UltraMild monomers in oligonucleotide synthesis has allowed very sensitive dyes like TAMRA, HEX and Cy5 to be used virtually routinely. The DNA and RNA monomers are currently available and we also provide this set of 2'-OMe-RNA monomers. In our version of this chemistry, we use as protecting groups phenoxyacetyl (Pac) for A, acetyl (Ac) for C, and isopropyl-phenoxyacetyl (iPr-Pac) for G.

It has become clear that acetic anhydride in the conventional capping mix can cause transamidation in situations where an amine protecting group is quite labile. This leads to acetyl protection on the amino group that may be slow to be removed. Consequently, if many dG residues are included in the oligonucleotide, we recommend the use of phenoxyacetic anhydride (Pac2O) in Cap A. This modification removes the possibility of exchange of the iPr-Pac protecting group on the dG with acetate from the acetic anhydride capping mix.

Details

Usage

  • Coupling: 6 minute coupling time. To avoid any exchange of the iPr-Pac group on the G with acetyl, use the UltraMild Cap Mix A (40-4210-xx/ 40-4212-xx).
  • Deprotection: UltraMILD deprotection: 0.05M Potassium Carbonate in Methanol, 4 hours at Room Temperature OR 2 hours at Room Temperature in 30% Ammonium Hydroxide
Specifications
Diluent Anhydrous Acetonitrile
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
10-3601-02 0.25 g .25grams 2.72 77.33 46.4 29 21.09 15.47 3.87
10-3601-05 0.5 g .5grams 5.45 168.33 101 63.13 45.91 33.67 8.42
10-3601-10 1.0 g 1grams 10.89 349.67 209.8 131.13 95.36 69.93 17.48
10-3601-90 100 µmol .092grams 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
10-3601-02 0.25 g .25grams 4.06 0.07 74.8 46.75 34 4.68
10-3601-05 0.5 g .5grams 8.13 0.07 156.2 97.63 71 9.76
10-3601-10 1.0 g 1grams 16.26 0.07 318.8 199.25 144.91 19.93
10-3601-90 100 µmol .092grams 1.5 0.07 23.6 14.75 10.73 1.48