3' Uaq cap can be introduced during synthesis at 3' end. This uridine base modified with 2'-anthraquinone offer a most efficient oligonucleotide capping. Caps are covalently appended residues that stabilize double helices by binding to termini.1-3 Uaq caps increase duplex melting points and improve base pairing fidelity by selectively binding to Watson-Crick base pairs. For short hybrid duplexes between DNA probes and RNA target strands, the increase is up to 18 °C.2 Further, appending the cap leads to larger Tms between duplexes of perfectly matched sequence and duplexes with a terminal mismatch, thereby improving base pairing fidelity at its terminus.

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Product Information


Product Name:

3' Uaq Cap


Capped oligo, capped

Modification Code:



Bio-Synthesis Inc. Oligo Structure



Delivery Format:


Shipping Conditions:

Room Temperature

Storage Conditions:

-20°C To -70°C
Oligonucleotides are stable in solution at 4°C for up to 2 weeks. Properly reconstituted material stored at -20°C should be stable for at least 6 months. Dried DNA (when kept at 20°C) in a nuclease-free environment should be stable for years.

Related Products:


  1. 5'-Trimethoxystilbene cap phosphoramidite, Glen Research catalog no. 10-1986, and 5'-pyrene cap phosphoramidite, Glen Research catalog no. 10-1987.
  2. A. Patra, C. Richert, High fidelity base pairing at the 3'-terminus. J. Amer. Chem. Soc. 2009, 131, 12671-12681.
  3. Tuma, J.; Paulini, R.; Rojas Stütz, J. A.; Richert, C. How much pi-stacking do DNA termini seek? Solution structure of a self-complementary DNA hexamer with trimethoxystilbenes capping the terminal base pairs. Biochemistry 2004, 43, 15680-15687