BBQ-650®-dT-CE Phosphoramidite
Catalog Number: 10-5944-xx
Description: BBQ-650®-dT-CE Phosphoramidite
5'-Dimethoxytrityloxy-5-[6-(9-[4-nitro-2',5'-dimethoxyazobenz-4'-yl
diazo]-julolidin-8-oxy)-hexylamidoethyl-3-acrylimido]-2'-deoxyUridine
-3'-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite |
| Formula: C76H89N12O15P |
M.W.: 1441.57 |
F.W.: 1000.95 |
Diluent: Anhydrous Acetonitrile/Dichloromethane 1:3 (v/v) - code :40-4450-20
Please request with your order if required. Berry recommends 1:4.
|
| Coupling: A coupling time of 15 minutes is recommended. |
| Deprotection: Complete the deprotection using the protocol required by the nucleobases. Compatible with standard deprotection conditions in Ammonium Hydroxide and room temperature AMA (Ammonium hydroxide/40% Methylamine 1:1 v/v) for 2 hours. |
| Storage: Freezer storage, -10 to -30°C, dry. Light sensitive material. |
| Stability in Solution: 1-2 days |
| Please Note: BlackBerry® Quencher technology: US Patent 7,879,986. The purchase of BlackBerry® Quencher reagents includes a limited license to use these reagents exclusively for research and development purposes. They may not be used for clinical or diagnostic purposes and they may not be re-sold, distributed, or re-packaged without prior agreement and consent of Berry & Associates, Inc. Subsequent sale of products that are derived from BlackBerry® Quencher reagents is permitted so long as the following written disclaimer is included in written and electronic catalogs, in commercial advertisement, and in packages with containers of such derivative products: "BlackBerry is a trademark of Berry & Associates, Inc. Products derived from BlackBerry® Quencher reagents are sold exclusively for research and development use by the purchaser. They may not be used for clinical or diagnostic purposes without prior agreement and consent of Berry & Associates, Inc." |
BLACK HOLE QUENCHER DYES
With the growing popularity of red and near-infrared dyes, we are offering the Black Hole QuencherTM dyes (BHQs), whose physical properties are detailed in Table 1. BHQ dyes are robust dark quenchers that very nicely complement our existing product line. They are compatible with ammonium hydroxide deprotection, exhibit excellent coupling efficiencies, have large extinction coefficients and are completely non-fluorescent. Their absorbances are well-tuned to quench a variety of popular fluorophores – even those far into the red, such as Cy3 and Cy5. The dark quencher most typically used in a Molecular Beacon is Dabcyl. Because the quenching does not involve FRET, there is little, if any, dependence upon donor-acceptor spectral overlap. In a comprehensive paper by Marras, Kramer and Tyagi,1 the ability of BHQ-1 and BHQ-2 to quench 22 different fluorophores was evaluated. For shorter wavelength fluorophores such as fluorescein, the quenching efficiency was roughly the same as Dabcyl (91% – 93%). However, for dyes emitting in the far red, such as Cy5, the BHQ dyes were far superior – quenching the Cy5 with 96% efficiency, compared to 84% with Dabcyl. This may reflect the BHQ’s ability to form stable, non-fluorescent complexes which can be a plus even in FRET probes. Indeed, recent work suggests that these non-fluorescent complexes will form even in the absence of a hairpin stem structure used by Molecular Beacons.2
BLACKBERRY® QUENCHER (BBQ-650®)
We are happy to offer several products containing the BlackBerry® Quencher (BBQ-650®), which exhibits a broad absorption profile from 550nm to 750nm, centered at 650nm. This range offers more effective quenching of some of our popular long wavelength dyes like TAMRA, Redmond Red, Cy dyes and DyLight dyes. We offer BBQ-650 products for the 3' and 5' termini, as well as BBQ-650-dT for inclusion within the oligonucleotide sequence, with the following properties:
- Quenches the fluorescence of long wavelength dyes
- Quenches in FRET and contact mode
- Absorbance maximum at ~650nm
- Quenching range - 550-750nm
- Compatible with standard oligo synthesis chemistry>
- Compatible with regular deprotection but requires mild deprotection with AMA at room temperature
- Available for 3’, 5’, and internal substitution
If you cannot find the answer to your problem then please contact us or telephone +44 (0)1954 210 200