pdC-CE Phosphoramidite

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10-1014
5'-Dimethoxytrityl-N4-diisobutylaminomethylidene-5-(1-Propynyl)-2'-deoxyCytidine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite

Product Specifications

Formula:
C51H67N6O7P
M.W.:
907.1
F.W.:
327.23
CAS Number:
193631-87-7
Catalog Number: Select Pack Size and Format to Reveal

Description

Substitution of C-5 propynyl-dC (pdC) for dC and C-5 propynyl-dU (pdU) for dT are effective strategies to enhance base pairing. Using these base substitutions, duplex stability and melting temperatures are raised by the following amounts: C-5 propynyl-C 2.8° per substitution; C-5 propynyl-U 1.7° per substitution. AP-dC (G-clamp) substitutes for dC and is another very important modified nucleoside that enhances hybridization by 7-21° per substitution depending upon the sequence and location of the AP-dC. The ability of these modified bases to enhance binding while maintaining specificity has proven useful in antisense research and in the synthesis of high affinity probes. AP-dC is also a fluorescent nucleoside and should find uses in DNA structural research.

Details

Usage

  • Coupling: No changes needed from standard method recommended by synthesizer manufacturer.
  • Deprotection: Deprotection in Ammonium Hydroxide requires a minimum of 12 hours at 55 °C.
Specifications
Diluent Anhydrous Acetonitrile
Storage Refrigerated storage, maximum of 2-8°C, dry
Stability Similar to dA,C,G,T-CE Phosphoramidites


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
10-1014-02 0.25 g .25grams 2.76 78.67 47.2 29.5 21.45 15.73 3.93
10-1014-05 0.5 g .5grams 5.51 170.33 102.2 63.88 46.45 34.07 8.52
10-1014-90 100 µmol .091grams 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
10-1014-02 0.25 g .25grams 4.11 0.07 75.8 47.38 34.45 4.74
10-1014-05 0.5 g .5grams 8.23 0.07 158.2 98.88 71.91 9.89
10-1014-90 100 µmol .091grams 1.5 0.07 23.6 14.75 10.73 1.48


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