Amino-Modifier C6 dT

5'-Dimethoxytrityl-5-[N-(trifluoroacetylaminohexyl)-3-acrylimido]-2'-deoxyUridine,3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite
main product photo

Product Specifications

Formula:
C50H62N6O10F3P
M.W.:
995.05
F.W.:
458.41
CAS Number:
178925-21-8
To Retrieve a Catalog Number, Select a Pack Size and Format:
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Technical Documents

Safety Data Sheet

Glen Report 26.24: DNA-Mediated Charge Transport: A Novel Property of DNA with Diverse Applications

Glen Report 29.15: Sequence Modification Using Glen Research's 5-Modified dU Family

Glen Report 6.13: DeoxyUridine Derivatives for Internal Modification

Glen Report 4-21: Biotinylation in the Sequence and at the 3'-Terminus

Glen Report 4-11: Introduction

Glen Report 4-12: RNA Synthesis - Options for 2'-OH Protection

Glen Report 3-22: Probes and Affinity Supports

Glen Report 33-15: Technical Note - DNA and RNA Nucleoside Numbering System

Description

Sequence Modifiers are designed for use in automated synthesis. The carboxy-dT is hydrolyzed during deprotection and can be coupled directly to a molecule containing a primary amino group by a standard peptide coupling or via the intermediate N-hydroxysuccinimide (NHS) ester. Amino-Modifier dA, Amino-Modifier dC, N2-Amino-Modifier dG and both Amino-Modifier dT products can be added in place of a dA, dC, dG and dT residue, respectively, during oligonucleotide synthesis. Corresponding Amino-Modifier supports can replace their respective deoxynucleoside supports. After deprotection, the primary amine on the C6 analogues is separated from the oligonucleotide by a spacer arm with a total of 7 -10 atoms and can be labelled or attached to an enzyme. The C2 analogue is more suitable for the attachment of molecules designed to react with the oligonucleotide.

Details

Usage

  • Coupling: Amino-Modifier C6 dT reacts in a manner identical to normal phosphoramidites. To prevent side reactions, synthesize using acetyl-protected dC. See Deprotection for futher details.
  • Deprotection: No changes needed from standard method recommended by synthesizer manufacturer. The TFA protecting group is removed during standard ammonium hydroxide deprotection. A minor side reaction during ammonia deprotection can lead to irreversibly capping 2-5% of the amine. This could be significant if multiple additions of the modifier are made. To prevent the reaction, synthesize using acetyl-protected dC and deprotect in 30% ammonia/40% methylamine 1:1 (AMA) at 65°C for 15 minutes.
Specifications
Diluent Anhydrous Acetonitrile
Storage Refrigerated storage, maximum of 2-8°C, dry
Stability 2-3 days

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
10-1039-02 0.25 g .25grams 2.51 70.33 42.2 26.38 19.18 14.07 3.52
10-1039-05 0.5 g .5grams 5.02 154 92.4 57.75 42 30.8 7.7
10-1039-90 100 µmol .1grams 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
10-1039-02 0.25 g .25grams 3.75 0.07 68.6 42.88 31.18 4.29
10-1039-05 0.5 g .5grams 7.5 0.07 143.6 89.75 65.27 8.98
10-1039-90 100 µmol .1grams 1.5 0.07 23.6 14.75 10.73 1.48

References

5-Formylcytosine-induced DNA–peptide cross-links reduce transcription efficiency, but do not do cause transcription errors in human cells Ji, S., Park, D., Kropachev, K., Kolbanovskiy, M., Fu, I., Broyde, S., Tretyakova, N. Y.

Selective Viramidine-Loaded Aptamer-Nanoparticles Trigger Cell Cycle Arrest in Nucleolin-Expressed Hepatoma Cells Through Modulation of CDC25A/p53/PI3k Pathway Abd-Rabou, A. A., Ahmed, H. H., Kishta, M. S., & Zoheir, K. M. A.

A stem-loop RNA RIG-I agonist protects against acute and chronic SARS-CoV-2 infection in mice Mao, T., Israelow, B., Lucas, C., Vogels, C. B. F., Gomez-Calvo, M. L., Fedorova, O., Breban, M. I., Menasche, B. L., Dong, H., Linehan, M., Yale SARS-CoV-2 Genome Surveillance Initiative, Wilen, C. B., Landry, M. L., Grubaugh, N. D., Pyle, A. M., & Iwasaki, A.

Molecular DNA dendron vaccines Max E. Distler, John P. Cavaliere, Michelle H. Teplensky, Michael Evangelopoulos, and Chad A. Mirkin

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Product FAQs

  • What is the extinction coefficient of Amino-Modifier C6 dT and C2 dT?