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Oligo Synthesis

Oligo Synthesis : CEPs

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dU-CE Phosphoramidite

dU-CE Phosphoramidite

Glen Research

Catalogue No.DescriptionPack SizePriceQty
10-1050-02dU-CE Phosphoramidite 0.25g £80.00£73.60Offer until : 29-Feb-2020Offer Code : GLEN88% off all Glen Research products View Offer Quantity Add to Order
10-1050-90dU-CE Phosphoramidite 100µmoles £50.00£46.00Offer until : 29-Feb-2020Offer Code : GLEN88% off all Glen Research products View Offer Quantity Add to Order

dU-CE Phosphoramidite

dU-CE Phosphoramidite

Glen Research

 

Structure

Catalog Number: 10-1050-xx

Description: dU-CE Phosphoramidite

5'-Dimethoxytrityl-2'-deoxyUridine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-
phosphoramidite
Formula: C39H47N4O8P M.W.: 730.8 F.W.: 290.17

Diluent: Anhydrous Acetonitrile
Coupling: No changes needed from standard method recommended by synthesizer manufacturer.
Deprotection: No changes needed from standard method recommended by synthesizer manufacturer.
Storage: Refrigerated storage, maximum of 2-8°C, dry
Stability in Solution: Similar to dA,C,G,T-CE Phosphoramidites

DUPLEX EFFECTS

The design of primers is frequently complicated by the degeneracy of the genetic code. Three strategies are now available to confront this problem. In the first, a mixed base addition (N) is used to form the degenerate site. This approach is best if the number of degenerate sites is small. A second option is the use of 2’-deoxyInosine or 2’-deoxyNebularine which exhibit low, but unequal, hydrogen bonding to the other four bases. The third option is the use of a universal nucleoside. In this strategy, the base analog does not hybridize significantly to the other four bases and makes up some of the duplex destabilization by acting as an intercalating agent. 3-Nitropyrrole 2’-deoxynucleoside (M) is the first example of a set of universal bases. Subsequently, 5-nitroindole was determined to be an effective universal base and to be superior to 3-nitropyrrole, based on duplex melting experiments.

The modified bases designated P and K show considerable promise as degenerate bases. The pyrimidine derivative P, when introduced into oligonucleotides, base pairs with either A or G, while the purine derivative K base pairs with either C or T. A dP dK mix also can serve as a mixed base with much less degeneracy than dA dC dG dT (N).

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dU-CE Phosphoramidite

dU-CE Phosphoramidite

Glen Research

Material Safety Data Sheet

???Glen Report 23.1: DNA Methylation Revisited

If you cannot find the answer to your problem below then please contact us or telephone 01954 210 200

dU-CE Phosphoramidite

dU-CE Phosphoramidite

Glen Research

 dU-CE Phosphoramidite

5'-Dimethoxytrityl-2'-deoxyUridine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-
phosphoramidite
Formula: C39H47N4O8P M.W.: 730.8 F.W.: 290.17

Diluent: Anhydrous Acetonitrile
Coupling: No changes needed from standard method recommended by synthesizer manufacturer.
Deprotection: No changes needed from standard method recommended by synthesizer manufacturer.
Storage: Refrigerated storage, maximum of 2-8°C, dry
Stability in Solution: Similar to dA,C,G,T-CE Phosphoramidites
  Material Safety Data Sheet

EXTINCTION DATA

Item Nucleoside λMax-1 Emax-1 λMax-2 Emax-2 E260
    (nm) (ml/µmole) nm (ml/µmole) (ml/µmole)
10-1050 dU 262 10     10

DILUTION/COUPLING DATA

The table below shows pack size data and, for solutions, dilutions and approximate couplings based on normal priming procedures. Please link for more detailed usage information with the various synthesizers.

ABI 392/394
Cat.No. Pack
Size
Grams/
Pack
0.1M Dil.
(mL)
LV40 LV200 40nm 0.2µm 1µm 10µm
Approximate Number of Additions
10-1050-02 0.25grams .25grams 3.42 100.67 60.4 37.75 27.45 20.13 5.03
10-1050-90 100µmoles .073grams 1 20 12 7.5 5.45 4 1
Expedite
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 50nm 0.2µm 1µm 15µm  
Approximate Number of Additions
10-1050-02 0.25grams .25grams 5.11 .067 95.8 59.88 43.55 5.99  
10-1050-90 100µmoles .073grams 1.5 .067 23.6 14.75 10.73 1.48  
Beckman
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 30nm 200nm 1000nm    
Approximate Number of Additions
10-1050-02 0.25grams .25grams 5.11 .067 97.4 60.88 44.27    
10-1050-90 100µmoles .073grams 1.5 .067 25.2 15.75 11.45

If you cannot find the answer to your problem below then please contact us or telephone 01954 210 200

dU-CE Phosphoramidite

dU-CE Phosphoramidite

Glen Research

The design of primers is frequently complicated by the degeneracy of the genetic code.  Three strategies are now available to confront this problem. 

  1. A mixed base addition (N) is used to form the degenerate site.  This approach is best if the number of degenerate sites is small.
  2. The use of 2'-deoxyInosine or 2'-deoxyNebularine which exhibit low, but unequal, hydrogen bonding to the other 4 bases.
  3. The use of a universal nucleotide.  In this strategy, the base analog does not hybridise significantly to the other 4 bases and makes up some of the duplex destabilisation by acting as an intercalating agent.

EXTINCTION DATA

Item Nucleoside λMax-1 Emax-1 λMax-2 Emax-2 E260
    (nm) (ml/µmole) nm (ml/µmole) (ml/µmole)
10-1050 dU 262 10     10

 

DILUTION/COUPLING DATA

The table below shows pack size data and, for solutions, dilutions and approximate couplings based on normal priming procedures. Please link for more detailed usage information with the various synthesizers.

ABI 392/394
Cat.No. Pack
Size
Grams/
Pack
0.1M Dil.
(mL)
LV40 LV200 40nm 0.2µm 1µm 10µm
Approximate Number of Additions
10-1050-02 0.25grams .25grams 3.42 100.67 60.4 37.75 27.45 20.13 5.03
10-1050-90 100µmoles .073grams 1 20 12 7.5 5.45 4 1
Expedite
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 50nm 0.2µm 1µm 15µm  
Approximate Number of Additions
10-1050-02 0.25grams .25grams 5.11 .07 95.8 59.88 43.55 5.99  
10-1050-90 100µmoles .073grams 1.5 .07 23.6 14.75 10.73 1.48  
Beckman
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 30nm 200nm 1000nm    
Approximate Number of Additions
10-1050-02 0.25grams .25grams 5.11 .07 97.4 60.88 44.27    
10-1050-90 100µmoles .073grams 1.5 .07 25.2 15.75 11.45  

If you cannot find the answer to your problem below then please contact us or telephone 01954 210 200