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Oligo Synthesis

Oligo Synthesis : CEPs

Prices quoted are for single packs only. For multiples of the same product please request a quote. Some of Glen's products are hazardous and may be subject to additional shipping charges. Full product information is available on Glen Research's website.

Pyrene-dU-CE Phosphoramidite

Pyrene-dU-CE Phosphoramidite

Glen Research

Catalogue No.DescriptionPack SizePriceQty
10-1590-02Pyrene-dU-CE Phosphoramidite 0.25g £440.00£404.80Offer until : 29-Feb-2020Offer Code : GLEN88% off all Glen Research products View Offer Quantity Add to Order
10-1590-90Pyrene-dU-CE Phosphoramidite 100µmoles £168.00£154.56Offer until : 29-Feb-2020Offer Code : GLEN88% off all Glen Research products View Offer Quantity Add to Order
10-1590-95Pyrene-dU-CE Phosphoramidite 50µmoles £84.00£77.28Offer until : 29-Feb-2020Offer Code : GLEN88% off all Glen Research products View Offer Quantity Add to Order

Pyrene-dU-CE Phosphoramidite

Pyrene-dU-CE Phosphoramidite

Glen Research

Pyrene-dU-CE Phosphoramidite

Structure

Catalog Number: 10-1590-xx

Description: Pyrene-dU-CE Phosphoramidite

5'-Dimethoxytrityl-5-(pyren-1-yl-ethynyl)-2'-deoxyUridine,
3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite
Formula: C57H55N4O8P M.W.: 955.04 F.W.: 514.42

Diluent: Anhydrous Acetonitrile/Dichloromethane 1:1 (v/v)
Coupling: 6 minute coupling time recommended.
Deprotection: No changes needed from standard method recommended by synthesizer manufacturer.
Storage: Freezer storage, -10 to -30°C, dry
Stability in Solution: 1-2days

FLUORESCENT NUCLEOSIDES

Etheno-dA is a fluorescent nucleoside which is especially useful in observing the transition between DNA structural types. It is quite base labile and should be deprotected with ammonium hydroxide at room temperature for 24 hours. Alternatively, UltraMild chemistry can be used. 2-Aminopurine and AP-dC (G-Clamp) are also useful fluorescent nucleosides.

Pyrrolo-dC is a fluorescent deoxycytidine analog that is an ideal probe of DNA structure and dynamics. It base-pairs as a normal dC nucleotide. An oligo fully substituted with pyrrolo-dC has the same ™ as the control dC oligo with the same specificity for dG. Its small size does not perturb the structure of the DNA helix and it is well tolerated by a number of DNA and RNA polymerases. It is highly fluorescent and its excitation and emission are well to the red of most fluorescent nucleotide analogs, which eliminates or reduces background fluorescence from proteins. Pyrrolo-dCTP has potential uses in biological assay development.

When a benzylcarbamoyl analogue of AP-dC (G-Clamp) was synthesized, it was found that, when incorporated into an oligo, it exhibited similar fluorescence to AP-dC. However, when base-paired against the 8-oxo-dG, its fluorescence was severely quenched. Rather remarkably, however, when base paired with dG or any of the other bases, A, C or T, there was no change in fluorescence – making it a specific probe for 8-oxo-dG.

By attaching pyrene or perylene to the 5 position of deoxyuridine through a triple bond, the fluorophore is electronically coupled to the deoxyuridine base. This electronic coupling of the base and the fluorophore makes the fluorescence sensitive to the base pairing of the dU portion of the molecule, allowing the discrimination between perfect and one base mismatched targets.

The base analogue tCnitro is a FRET-acceptor together with tCO (or tC) as the donor molecule. This constitutes the first ever description of a nucleobase FRET-pair. This novel FRET-pair provides a unique tool for investigations of nucleic acid containing systems. tCnitro is virtually non-fluorescent under normal conditions.


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Pyrene-dU-CE Phosphoramidite

Pyrene-dU-CE Phosphoramidite

Glen Research

Material Safety Data Sheet

Glen Report 19.2: Versatile New Reagents ? Pyrene-dU and Perylene-dU

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

Pyrene-dU-CE Phosphoramidite

Pyrene-dU-CE Phosphoramidite

Glen Research

LITERATURE HIGHLIGHTS

Glen Report 19.2: Versatile New Reagents ? Pyrene-dU and Perylene-dU

 

REQUENTLY ASKED TECHNICAL QUESTION

QUESTION: What are the relative extinction coefficients of 5'-Fluorescein, Hex and Tet etc.. at 260 nm and their Lambda max?

RESPONSE:Please see http://www.glenresearch.com/Technical/Extinctions.html

REFERENCE(S):
Oligonucleotide Properties Calculator; http://www.basic.northwestern.edu/biotools/oligocalc.html

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

Pyrene-dU-CE Phosphoramidite

Pyrene-dU-CE Phosphoramidite

Glen Research

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
10-1590-95 50µmoles .048grams .5 3.33 2 1.25 .91 .67 .17
10-1590-90 100µmoles .096grams 1 20 12 7.5 5.45 4 1
10-1590-02 0.25grams .25grams 2.62 74 44.4 27.75 20.18 14.8 3.7
Expedite
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 50nm 0.2µm 1µm 15µm
Approximate Number of Additions
10-1590-95 50µmoles .048grams .75 .07 8.6 5.38 3.91 .54
10-1590-90 100µmoles .096grams 1.5 .07 23.6 14.75 10.73 1.48
10-1590-02 0.25grams .25grams 3.91 .07 71.8 44.88 32.64 4.49
Beckman
Cat.No. Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity 30nm 200nm 1000nm

Approximate Number of Additions
10-1590-95 50µmoles .048grams .75 .07 10.2 6.38 4.64

10-1590-90 100µmoles .096grams 1.5 .07 25.2 15.75 11.45

10-1590-02 0.25grams .25grams 3.91 .07 73.4 45.88 33.36

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