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Oligo Synthesis

Oligo Synthesis : CEPs

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2'-DeoxyNebularine-CE Phosphoramidite (Purine)

2'-DeoxyNebularine-CE Phosphoramidite (Purine)

Glen Research

Catalogue No.DescriptionPack SizePriceQty
10-1041-022'-DeoxyNebularine-CE Phosphoramidite (Purine) 0.25g £204.00£173.40Offer until : 30-Sep-2019Offer Code : GLEN1515% offer orders over £1000 View Offer Quantity Add to Order
10-1041-902'-DeoxyNebularine-CE Phosphoramidite (Purine) 100µmoles £84.00£71.40Offer until : 30-Sep-2019Offer Code : GLEN1515% offer orders over £1000 View Offer Quantity Add to Order

2'-DeoxyNebularine-CE Phosphoramidite (Purine)

2'-DeoxyNebularine-CE Phosphoramidite (Purine)

Glen Research

2'-DeoxyNebularine-CE Phosphoramidite (Purine)

Structure

Catalog Number: 10-1041-xx

Description: 2'-DeoxyNebularine-CE Phosphoramidite (Purine)

5'-Dimethoxytrityl-2'-deoxyNebularine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-
phosphoramidite
Formula: C40H47N6O6P M.W.: 738.82 F.W.: 298.19

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: 24 hours

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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2'-DeoxyNebularine-CE Phosphoramidite (Purine)

2'-DeoxyNebularine-CE Phosphoramidite (Purine)

Glen Research

MSDS

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2'-DeoxyNebularine-CE Phosphoramidite (Purine)

2'-DeoxyNebularine-CE Phosphoramidite (Purine)

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)
10-1041 dNebularine 262 1 7.1     7

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
10-1041-02 0.25grams .25grams 3.38 99.33 59.6 37.25 27.09 19.87 4.97
10-1041-90 100µmoles .074grams 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
10-1041-02 0.25grams .25grams 5.05 .07 94.6 59.13 43 5.91  
10-1041-90 100µmoles .074grams 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
10-1041-02 0.25grams .25grams 5.05 .07 96.2 60.13 43.73    
10-1041-90 100µmoles .074grams 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