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modified oligonucleotides

modified oligonucleotides

The most common modifications are at the end of the string – at the 3’ or 5’ end, or combined. The modifying molecule may be in the middle of the chain, the bases in the chain may be replaced by their analogs; spacers of different lengths and nature, functional groups or molecules may be inserted into the chain. Modified phosphate linkage may be in the chain in all or only in selected positions. Less frequent modifications or their combinations are recommended to be consulted first because there are many limitations for synthesis and for purification of the resulting product.

Biotin

Biotin Biotin

Biotin may be attached either to the 5' end or the 3' end of the oligonucleotide. The biotin molecule is separated from the 3' end by a sixteen carbon spacer.

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Biotin dT

Biotin dT Biotin dT

Biotin dT is attached with a six carbon spacer at position 5 of the thymine circle. Biotin dT may be attached anywhere within the oligonucleotide sequence except for the 3' end.

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Biotin-TEG

Biotin-TEG Biotin-TEG

Biotin is ligated to the oligonucleotide by means of a triethylene glycol spacer (TEG), extending the distance between the oligonucleotide and the biotin by 15 atoms. Biotin-TEG may be ligated to the 3 'end of the oligonucleotide.

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C8-Alkyne-dC

C8-Alkyne-dC C8-Alkyne-dC

It is used for conjugations based on the click chemistry principle. C8-Alkyne-dC may be attached anywhere within the oligonucleotide sequence except for the 3' end.

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C8-Alkyne-dT

C8-Alkyne-dT C8-Alkyne-dT

It is used for conjugations based on the click chemistry principle. C8-Alkyne-dT may be attached anywhere within the oligonucleotide sequence except for the 3' end.

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CFR 610

CFR 610 CFR 610

CFR 610 is an orange-red fluorophore. It is also used as a good alternative to fluorophore Texas Red. CFR 610 may be attached only to 5´end of an oligonucleotide.

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CFR 635

CFR 635 CFR 635

CFR 635 is an orange-red fluorophore. It is used as a good alternative to LC red 640. CFR 635 may be attached only to 5´end of an oligonucleotide.

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Cy3

Cy3 Cy3

May be attached anywhere within the oligonucleotide sequence except for the 3' end.

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Cy3.5

Cy3.5 Cy3.5

May be attached anywhere within the oligonucleotide sequence except for the 3' end.

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Cy5

Cy5 Cy5

May be attached to the 5' end of the oligonucleotide. Oligonucleotide purification is a necessity.

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D-spacer

D-spacer D-spacer

May be attached anywhere within the oligonucleotide sequence except for the 3' end. It is used to introduce a stable abasic position to the oligonucleotide chain.

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Dabcyl

Dabcyl Dabcyl

Relatively weak quencher suitable for molecular beacons probes. Dabcyl may be attached to the 5' end or the 3'end of the oligonucleotide.

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