Oligo Synthesis : CEPs
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5-I-dU-CE Phosphoramidite
5-I-dU-CE Phosphoramidite
Glen Research
| Catalogue No. | Description | Pack Size | Price | Qty |
|
|---|---|---|---|---|---|
| 10-1091-02 | 5-I-dU-CE Phosphoramidite | 0.25g | £128.00£121.60Offer until : 31-Mar-2021Offer Code : GLEN5View Offer | Quantity | Add to Order |
| 10-1091-90 | 5-I-dU-CE Phosphoramidite | 100µmoles | £48.00£45.60Offer until : 31-Mar-2021Offer Code : GLEN5View Offer | Quantity | Add to Order |
Related products
5-I-dU-CE Phosphoramidite
5-I-dU-CE Phosphoramidite
Glen Research
| 5-I-dU-CE Phosphoramidite |
Catalog Number: 10-1091-xx
Description: 5-I-dU-CE Phosphoramidite
| 5"-Dimethoxytrityl-5-iodo-2"-deoxyUridine,3"-[(2-cyanoethyl)-(N,N-diisopropyl)]-phosphoramidite | ||
| Formula: C39H46IN4O8P | M.W.: 856.69 | F.W.: 416.07 |
Diluent: Anhydrous Acetonitrile |
| Coupling: No changes needed from standard method recommended by synthesizer manufacturer. |
| Deprotection: Mild deprotection: Ammonium Hyrdoxide for 24 hours at room temperature |
| Storage: Refrigerated storage, maximum of 2-8°C, dry |
| Stability in Solution: 24 hours |
HALOGENATED NUCLEOSIDES
Brominated and iodinated nucleosides are used in crystallographystudies of oligonucleotide structure. They are also photolabile and are used forcross-linking studies to probe the structure of protein-DNA complexes.Antibodies exist to Br-dU and oligonucleotides containing Br-dU can be used asprobes.
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5-I-dU-CE Phosphoramidite
5-I-dU-CE Phosphoramidite
Glen Research
MSDS
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5-I-dU-CE Phosphoramidite
5-I-dU-CE Phosphoramidite
Glen Research
Oligonucleotides containinga bromo or iodo group are prepared conventionally with the exception that deprotection is carried out in ammonium hydroxide at room temperature for 24 hours. Under these conditions, degradation of the halogen group was less than 2%.
Frequently Asked Technical Question
QUESTION: What methods are available for crosslinking DNA with DNA, RNA, proteins?
RESPONSE:The most widely used method seems to be using Br-dU and, more recently, I-dU (1).The substitution of photoreactive Br and I for the 5-Me group of thymidine is attractive since their radii are similar to that of the methyl group.These modifications do not significantly affect the binding of oligonucleotides with proteins.Br-dU is irradiated at 308nm and crosslinking is typically not greater than 40%.Crosslinking of I-dU at 308nm is higher but is optimal at 325nm.Laser excitation is preferred.
After the synthesis of oligonucleotides containing Br-dU or I-dU, care must be taken to avoid loss of the halogens.Even though both modifications are quite stable to ammonium hydroxide, it is sensible to play safe and carry out the deprotection at room temperature for 24 hours.Even better, use the UltraMild monomers and deprotect with potassium carbonate in methanol at room temeperature.The oligonucleotide products should be protected from light - plastic tubes and amber vials are safe.Gel electrophoresis should be carried out protected from light.
REFERENCE(S):(1)M.C. Willis, B.J. Hicke, O.C. Uhlenbeck, T.R. Cech and T.H. Koch, Science, 1993, 262, 1255.
QUESTION: What are the extinction coefficients for propynyl-dC and dU?Also Halogenated dC and dU derivatives?Others?
RESPONSE:See: Table of Extinction Coefficients
REFERENCE(S):B. Froehler, GileadM. PowellR. Somers
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5-I-dU-CE Phosphoramidite
5-I-dU-CE Phosphoramidite
Glen Research
EXTINCTION DATA
| Item | Nucleoside | λMax-1 | Emax-1 | λMax-2 | Emax-2 | E260 |
| (nm) | (ml/µmole) | nm | (ml/µmole) | (ml/µmole) | ||
| 10-1091 | 5-I-dU | 287 | 7.7 | 3.7 |
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 | |||||||||
| 10-1091-02 | 0.25grams | .25grams | 2.92 | 84 | 50.4 | 31.5 | 22.91 | 16.8 | 4.2 |
| 10-1091-90 | 100µmoles | .086grams | 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 | |||||||||
| 10-1091-02 | 0.25grams | .25grams | 4.36 | .07 | 80.8 | 50.5 | 36.73 | 5.05 | |
| 10-1091-90 | 100µmoles | .086grams | 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 | |||||||||
| 10-1091-02 | 0.25grams | .25grams | 4.36 | .07 | 82.4 | 51.5 | 37.45 | ||
| 10-1091-90 | 100µmoles | .086grams | 1.5 | .07 | 25.2 | 15.75 | 11.45 | ||
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