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Oligo Synthesis

Oligo Synthesis : CEPs

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Acridine Phosphoramidite

Acridine Phosphoramidite

Glen Research

Catalogue No.DescriptionPack SizePriceQty
10-1973-02Acridine Phosphoramidite 0.25g £614.00 Quantity Add to Order
10-1973-90Acridine Phosphoramidite 100µmoles £268.00 Quantity Add to Order
10-1973-95Acridine Phosphoramidite 50µmoles £150.00 Quantity Add to Order

Description

Acridine Phosphoramidite

Structure

Catalog Number: 10-1973-xx

Description: Acridine Phosphoramidite

1-Dimethoxytrityloxy-2-(N-acridinyl-4-aminobutyl)-propyl-3-O-
(2-cyanoethyl)-(N,N,-diisopropyl)-phosphoramidite
Formula: C51H60N4O6PCl M.W.: 891.53 F.W.: 450.86
Diluent: Anhydrous Acetonitrile
Coupling: 15 minute coupling time is recommended.(Acetyl-protected Cytidine should be used to avoid deamination when methanolic sodium hydroxide is used for deprotection.)
Deprotection: Cleavage and deprotection should be carried out using a mild deprotection: 0.4M methanolic sodium hydroxide (methanol:water 4:1) for 17 hours at room temperature. Pipet off support and neutralize with 2M TEAA.Note: NaOH is not compatible with dmf protecting groups.
Storage: Freezer storage, -10 to -30°C, dry
Stability in Solution: 2-3 days

acridine LABELLING

Acridine phosphoramidite is designed to produce an oligonucleotide containing acridine at any position in the molecule. Acridine CPG is used to label the 3’-terminus. Acridine is an effective intercalating agent.

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Protocols

MSDS

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Notes

Frequently 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

QUESTION: What are the relative extinction coefficients of various dyes?

RESPONSE:Please see http://www.glenres.com/Technical/Extinctions.html#dyes

QUESTION: Does AMA or methylamine cause any degradation to fluorescein or fluorescein-type dyes such as FAM or FITC?

RESPONSE:Response: While AMA (Ammonium hydroxide/40% Methylamine 1:1 v/v) is considered compatible with fluorescein, the use of methylamine when deprotecting a Fluorescein-labeled oligo does lead to a small amount of degradation, which is characterized by a the appearance of a late-eluting peak by RP HPLC that shows no visible fluorescein absorbance. With standard deprotection conditions (AMA 10 minutes at 65 C) the amount of degradation is approximately 5%. The impurity is not detected with AMA at RT for 2 hours.

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Applications & Benefits

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
10-1973-02 0.25grams .25grams 2.8 80 48 30 21.82 16 4
10-1973-90 100µmoles .089grams 1 20 12 7.5 5.45 4 1
10-1973-95 50µmoles .045grams .5 3.33 2 1.25 .91 .67 .17
Expedite
Cat.No. Pack
Size		 Grams/
Pack		 Dilution
(mL)		 Molarity 50nm 0.2µm 1µm 15µm
Approximate Number of Additions
10-1973-02 0.25grams .25grams 4.19 .07 77.4 48.38 35.18 4.84
10-1973-90 100µmoles .089grams 1.5 .07 23.6 14.75 10.73 1.48
10-1973-95 50µmoles .045grams .75 .07 8.6 5.38 3.91 .54
Beckman
Cat.No. Pack
Size		 Grams/
Pack		 Dilution
(mL)		 Molarity 30nm 200nm 1000nm

Approximate Number of Additions
10-1973-02 0.25grams .25grams 4.19 .07 79 49.38 35.91

10-1973-90 100µmoles .089grams 1.5 .07 25.2 15.75 11.45

10-1973-95 50µmoles .045grams .75 .07 10.2 6.38 4.64

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Related products

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