Spacer Modification

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Applicable Products

2552 Spacer-CE Phosphoramidite C2
2113 Spacer-CE Phosphoramidite C3
2128 Spacer-CE Phosphoramidite 9
2129 Spacer-CE Phosphoramidite 18
2146 dSpacer-CE Phosphoramidite
2147 Spacer-CE Phosphoramidite C12
2245 3'-Spacer-C3 SynBase™ CPG 1000/110
2395 3'-Spacer-C3 SynBase™ CPG 3000/110
2459 3'-Spacer-C3 Polystyrene

Physical & Dilution Data

Dilution volumes (in ml) are for 0.1M solutions in dry acetonitrile (4050). Adjust accordingly for other concentrations. For µmol pack sizes, products should be diluted as 100µmol/ml to achieve 0.1M, regardless of molecular weight.

Item

Mol. Formula

Mol. Wt.

Unit Wt.

250mg

500mg

1g

2552 C32H41N2O5P 564.66 124.03 4.43 8.85 17.71
2113 C33H43N2O5P 578.69 138.06 4.32 8.64 17.28
2128 C36H49N2O7P 652.77 212.14 3.83 7.66 15.32
2129 C42H61N2O10P 784.93 344.30 3.18 6.37 12.74
2146 C35H45N2O6P 620.73 180.10 4.03 8.06 16.11
2147 C42H61N2O5P 704.93 264.30 3.55 7.09 14.19
2245 - - 138.06 - - -
2395 - - 138.06 - - -
2459 - - 138.06 - - -

Dissolution

Prepare the amidite solutions 5-10min before use. It is recommended these are vortexed to ensure complete dissolution before placing on the synthesiser.

Coupling, Cleavage & Deprotection

For all spacer phosphoramidites, no changes are required from standard synthesiser protocols for either coupling. Likewise, standard oligonucleotide deprotection conditions can be applied when deprotecting an oligo containing these modifications.

The CPGs are used in a manner identical to standard protected nucleoside supports, however non-nucleosidic modification (using 2245, 2395 or 2459) requires an initial detritylation prior to use in synthesis. For these modifications it is advised to carry out an initial deblock step, but not an initial capping step. This minimises the formation of N-1 product at the 3’ end. Cleavage and deprotection is achieved using the protocol required by the nucleobases. The cleavage and deprotection can also be done in one step by placing the resin in the deprotection solution then using the conditions required for deprotecting the nucleobases.

Storage & Stability

The products are stored dry in a freezer at –10 to –30°C. Phosphoramidite stability in solution is 2-3 days.

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