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pdC-CE Phosphoramidite - (10-1014)

5'-Dimethoxytrityl-N4-diisobutylaminomethylidene-5-(1-Propynyl)-2'-deoxyCytidine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite

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10-1014

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Product Specifications

Formula:

C₅₁H₆₇N₆O₇P

M.W.:

907.1

F.W.:

327.23

CAS Number:

193631-87-7

5'-Dimethoxytrityl-N4-diisobutylaminomethylidene-5-(1-Propynyl)-2'-deoxyCytidine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite

Description

Substitution of C-5 propynyl-dC (pdC) for dC and C-5 propynyl-dU (pdU) for dT are effective strategies to enhance base pairing. Using these base substitutions, duplex stability and melting temperatures are raised by the following amounts: C-5 propynyl-C 2.8° per substitution; C-5 propynyl-U 1.7° per substitution. AP-dC (G-clamp) substitutes for dC and is another very important modified nucleoside that enhances hybridization by 7-21° per substitution depending upon the sequence and location of the AP-dC. The ability of these modified bases to enhance binding while maintaining specificity has proven useful in antisense research and in the synthesis of high affinity probes. AP-dC is also a fluorescent nucleoside and should find uses in DNA structural research.

Details

Usage

Coupling: No changes needed from standard method recommended by synthesizer manufacturer.
Deprotection: Deprotection in Ammonium Hydroxide requires a minimum of 12 hours at 55 °C.

Specifications
Diluent	Anhydrous Acetonitrile
Recommended Storage	Refrigerated storage, maximum of 2-8°C, dry
Stability In Solution	Similar to dA,C,G,T-CE Phosphoramidites

Dilution/Coupling Data

The table below show pack size data and, for solutions, dilution and approximate coupling based on normal priming procedures.

ABI 392/394

Catalog #	Pack Size	Grams/Pack	0.1M Dil. (mL)	Approximate Number of Additions
				LV40	LV200	40nm	0.2μm	1μm	10μm
10-1014-02	0.25 g	.25grams	2.76	78.67	47.2	29.5	21.45	15.73	3.93
10-1014-05	0.5 g	.5grams	5.51	170.33	102.2	63.88	46.45	34.07	8.52
10-1014-90	100 µmol	.091grams	1	20	12	7.5	5.45	4	1

Expedite

Catalog #	Pack Size	Grams/Pack	Dilution (mL)	Approximate Number of Additions
				Molarity	50nm	0.2μm	1μm	15μm
10-1014-02	0.25 g	.25grams	4.11	0.07	75.8	47.38	34.45	4.74
10-1014-05	0.5 g	.5grams	8.23	0.07	158.2	98.88	71.91	9.89
10-1014-90	100 µmol	.091grams	1.5	0.07	23.6	14.75	10.73	1.48