Glen Research Product Information

Catalog Number: 10-5915-xx
Description: Cyanine 5 Phosphoramidite

1-[3-(4-monomethoxytrityloxy)propyl]-1'-[3-[(2-cyanoethyl)-(N,N-diisopropyl phosphoramidityl]propyl]-3,3,3',3'-tetramethylindodicarbocyanine chloride

Formula: C60H72N4O4PCl 
M.W.: 979.68 
F.W.: 533.63 

Diluent: Anhydrous Acetonitrile

Coupling: 3 minute coupling time recommended. The use of UltraMILD monomers are preferred. (Catalog Numbers: dA: 10-1601-xx, dC: 10-1015-xx, dG: 10-1621-xx, dT: 10-1030-xx). To avoid any exchange of the iPr-Pac group on the dG with acetyl, use the UltraMild Cap Mix A (40-4210-xx/ 40-4212-xx). 0.02M Iodine for oxidation is recommended.

Deprotection: If UltraMILD reagents were used, deprotect in 0.05M Potassium Carbonate in Methanol for 4 hours at Room Temperature OR for 2 hours at Room Temperature in 30% Ammonium Hydroxide. If standard bases were used, deprotection in Ammonium Hydroxide at Room Temperature for 24-36 hours will give acceptable yields. However, the oligonucleotide will require a reverse phase purification, e.g., Poly-Pak™ or Glen-Pak™ purification.

Storage: Freezer storage, -10 to -30°C, dry

Stability in Solution: 24 hours

   

Pricing Information

Catalog Number

Pack Size

Price (US$)


10-5915-95
50µm
205.00
10-5915-90
100µm
375.00
10-5915-02
0.25g
925.00

Related Document(s)

  

Literature Highlight(s)

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: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%


QUESTION: Dye Quencher Plot

RESPONSE:Dye Quencher Plot


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)
LV40LV20040nm0.2µm1µm10µm
Approximate Number of Additions
10-5915-020.25grams.25grams2.5571.674326.8819.5514.333.58
10-5915-90100µmoles.098grams120127.55.4541
10-5915-9550µmoles.049grams.53.3321.25.91.67.17
Expedite
Cat.No.Pack
Size
Grams/
Pack
Dilution
(mL)
Molarity50nm0.2µm1µm15µm
Approximate Number of Additions
10-5915-020.25grams.25grams3.81.0769.843.6331.734.36
10-5915-90100µmoles.098grams1.5.0723.614.7510.731.48
10-5915-9550µmoles.049grams.75.078.65.383.91.54

 

 

VIEW PRINTABLE VERSION

 

 


  

01/19/2019

 

 

 

 

 

 

 

 

 

 

 

 

 

 


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