Oligo Synthesis : CEPs
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5"-Pyrene Cap Phosphoramidite
5"-Pyrene Cap Phosphoramidite
Glen Research
| Catalogue No. | Description | Pack Size | Price | Qty |
|
|---|---|---|---|---|---|
| 10-1987-02 | 5"-Pyrene Cap Phosphoramidite | 0.25g | £396.00£376.20Offer until : 31-Mar-2021Offer Code : GLEN5View Offer | Quantity | Add to Order |
| 10-1987-90 | 5"-Pyrene Cap Phosphoramidite | 100µmoles | £156.00£148.20Offer until : 31-Mar-2021Offer Code : GLEN5View Offer | Quantity | Add to Order |
Related products
5"-Pyrene Cap Phosphoramidite
5"-Pyrene Cap Phosphoramidite
Glen Research
| 5"-Pyrene Cap Phosphoramidite |
Catalog Number: 10-1987-xx
Description: 5"-Pyrene Cap Phosphoramidite
| (N-(1-pyrenylmethyl)-pyrrolidin-3-oxy)-O-(2-cyanoethyl)-(N,N-diisopropyl)-phosphoramidite | ||
| Formula: C30H36N3O2P | M.W.: 501.60 | F.W.: 363.35 |
Diluent: Anhydrous AcetonitrileAdd fresh diluent to product vial to recommended concentration and swirl vial occasionally over several minutes until product is completely dissolved.(Some oils may require between 5 and 10 minutes.) Use care to maintain anhydrous conditions.In case of transfer to alternate vial type, ensure recipient vial has been pre-dried. For more information, see http://www.glenres.com/Technical/TB_ABITransfer.pdf. |
| Coupling: 3 minute coupling time recommended |
| Deprotection: No changes needed from standard method recommended by synthesizer manufacturer. |
| Storage: Freezer storage, -10 to -30°C, dry |
| Stability in Solution: 2-3 days |
Caps for Increased Duplex Stability andBase-Pairing Fidelity at Termini
New cap structures allow for the preparation of hybridizationprobes with increased affinity for complementary sequences. The monomers used toprepare capped oligonucleotides are phosphoramidites that can be readilyintroduced via automated DNA synthesis at the end of solid phase syntheses. Thecaps favor the formation of stable Watson-Crick duplexes by stacking on theterminal base pair (Figures 1 and 2).
 |  |
| FIGURE 1: STACKING OF CAP ON TERMINAL BASE PAIR | FIGURE 2: STACKING OF Uaq CAP ON 3’ TERMINAL BASEPAIR |
Melting point increases of over 10 °C per modification can be realized forshort duplexes.1,2 The caps fit canonical Watson-Crick base pairs and do notstack well on mismatched base pairs. This leads to increased base pairingselectivity at the terminal and the penultimate position of oligonucleotidesfeaturing the caps. Base pairing fidelity is usually low at the termini, wherefraying occurs frequently in the absence of caps. The beneficial effects of thecaps are also realized when longer target strands are bound, so there is no needfor blunt ends for the duplexes formed.1,2 The caps, when attached to the 5’terminus of an oligonucleotide, also facilitate purification as theirlipophilicity leads to prolonged retention on reversed phase columns orcartridges. Finally, capping of termini may discourage the degradation ofoligonucleotides by exonucleases.
3’-Uaq Cap CPG, a Uridine support modified with a 2’-anthraquinone residue, is the most effective oligonucleotide cap known todate.3,4 For short hybrid duplexes between DNA probes and RNA target strands,the increase in Tm is up to 18 °C and the modification is effective inincreasing the Tm of DNA:DNA, RNA:RNA, and DNA:RNA hybrid duplexes. 3’-Uaq Capalso increases probe specificity by depressing the melting point of terminalmismatches.
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5"-Pyrene Cap Phosphoramidite
5"-Pyrene Cap Phosphoramidite
Glen Research
MSDS
Glen Report 18.1: Caps for Increased Duplex Stability and Base-Pairing Fidelity at Termini
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5"-Pyrene Cap Phosphoramidite
5"-Pyrene Cap Phosphoramidite
Glen Research
EXTINCTION DATA
| Item | Nucleoside | λMax-1 | Emax-1 | λMax-2 | Emax-2 | E260 |
| (nm) | (ml/µmole) | nm | (ml/µmole) | (ml/µmole) | ||
| 10-1987 | 350 | 26.2 | 11.8 |
DILUTION/COUPLING DATA
The table below shows pack size data and, for solutions, dilutions and approximate couplings based on normal priming procedures.
| ABI 392/394 | |||||||||
| Cat.No. | PackSize | Grams/Pack | 0.1M Dil.(mL) | LV40 | LV200 | 40nm | 0.2µm | 1µm | 10µm |
| Approximate Number of Additions | |||||||||
| 10-1987-02 | 0.25grams | .25grams | 4.98 | 152.67 | 91.6 | 57.25 | 41.64 | 30.53 | 7.63 |
| 10-1987-90 | 100µmoles | .05grams | 1 | 20 | 12 | 7.5 | 5.45 | 4 | 1 |
| Expedite | |||||||||
| Cat.No. | PackSize | Grams/Pack | Dilution(mL) | Molarity | 50nm | 0.2µm | 1µm | 15µm | |
| Approximate Number of Additions | |||||||||
| 10-1987-02 | 0.25grams | .25grams | 7.44 | .07 | 142.4 | 89 | 64.73 | 8.9 | |
| 10-1987-90 | 100µmoles | .05grams | 1.5 | .07 | 23.6 | 14.75 | 10.73 | 1.48 | |
| Beckman | |||||||||
| Cat.No. | PackSize | Grams/Pack | Dilution(mL) | Molarity | 30nm | 200nm | 1000nm | ||
| Approximate Number of Additions | |||||||||
| 10-1987-02 | 0.25grams | .25grams | 7.44 | .07 | 144 | 90 | 65.45 | ||
| 10-1987-90 | 100µmoles | .05grams | 1.5 | .07 | 25.2 | 15.75 | 11.45 | ||
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