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Compounds for RNA Synthesis

L L • November 30, 2017

RNA Synthesis

See the full list of in-house RNA Compoundsused in our synthesis

Improving RNA Synthesis

The synthesis of RNA is conventionally more sensitive than DNA. This poses challenges in developing very similar synthesis compounds such as amidites and supports, but with the right chemistry to counter RNA-specific hurdles. Stability and structural confirmation are routine offenders, and both can be countered by utilizing backbone phosphorothioation and reverse synthesis techniques. β-L-RNA-Spiegelmers and minor RNA phosphoramidites offer novel solutions to end-user specificity. While TOM-amidites are highly suitable for large scale therapeutic grade RNA synthesis, long RNA sequences, aptamers, and biologically significant RNA molecules.


See the full list of in-house RNA Compounds used in our synthesis below:

RNA Synthesis

A: CE Phophoroamidites: TBDMS Protected

(1)-TBDMS Protected
Adenosine ( N -Ac)-DMTr-3'-CEP
Adenosine ( N -Bz)-DMTr-3'-CEP
Adenosine (N-Bz)-MMTr-3'-CEP
Cytidine ( N -Ac)-DMTr-3'-CEP
Cytidine ( N -Bz)-DMTr-3'-CEP
Cytidine ( N -Bz)-MMTr-3'-CEP
Guanosine ( N -Ac)-DMTr-3'-CEP
Guanosine ( N -DMF)-DMTr-3'-CEP
Guanosine ( N -iBu)-DMTr-3'-CEP
Guanosine ( N -iBu)-MMTr-3'-CEP
Uridine-DMTr-3'-CEP
Uridine-MMTr-3'-CEP
(2)-TBDMS Protected (Ultramild base protection)
Adenosine ( N -PAC)-DMTr-3'-CEP
Adenosine ( N -PAC)-MMTr-3'-CEP
Cytidine ( N -Ac)-DMTr-3'-CEP
Cytidine ( N -PAC)-DMTr-3'-CEP
Cytidine ( N -tBPAC)-MMTr-3'-CEP
Guanosine ( N -iprPAC)-DMTr-3'-CEP
Guanosine ( N -PAC)-DMTr-3'-CEP
Guanosine ( N -PAC)-MMTr-3'-CEP
Guanosine ( N -Phenyl-Ac)-DMTr-3'-CEP
(3)-TOM Protected
2'-TOM-Adenosine ( N -Ac)-DMTr-3'-CEP
2'-TOM-Cytidine ( N -Ac)-DMTr-3'-CEP
2'-TOM-Guanosine ( N -Ac)-DMTr-3'-CEP
2'-TOM-Uridine-DMTr-3'-CEP
(4)-Acetal levulinyl ester Protected
2'-ALE-Adenosine ( N -PAc)-5'-NPPOC-3'-CEP
2'-ALE-Cytidine ( N -iBu)-5'-NPPOC-3'-CEP
2'-ALE-Guanosine ( N -PAc)-5'-NPPOC-3'-CEP
2'-ALE-Uridine-5'-NPPOC-3'-CEP
(5)-Pivaloyloxymethyl Protected
2'-Pivom-Adenosine ( N -PAc)-DMTr-3'-CEP
2'-Pivom-Cytidine ( N -Ac)-DMTr-3'-CEP
2'-Pivom-Guanosine ( N -iPrPAC)-DMTr-3'-CEP
2'-Pivom-Uridine-DMTr-3'-CEP

B: Supports

(1)-TBDMS Protected 3'-CPG
Adenosine ( N -Bz)-DMTr-3'-Icaa CPG
Cytidine ( N -Ac)-DMTr-3'-Icaa CPG
Cytidine ( N -Bz)-DMTr-3'-Icaa CPG
Guanosine ( N -iBu)-DMTr-3'-Icaa CPG
Uridine-DMTr-3'-Icaa CPG
(2)-TBDMS protected 3'-CPG (Ultramild base protection)
Adenosine ( N -PAC)-DMTr-3'-Icaa CPG
Adenosine ( N -tBPAC)-DMTr- 3'-Icaa CPG
Cytidine ( N -PAC)-DMTr-3'-Icaa CPG
Guanosine ( N -PAC)-DMTr-3'-Icaa CPG
Guanosine ( N -tBPAC)-DMTr-3'-Icaa CPG
Uridine-DMTr-3'-Icaa CPG
(3)-TBDMS protected 3'-Oxalyl CPG
Adenosine ( N -PAC)-DMTr-3'-oxalyl Icaa-CPG
Ammonia Free Oligo Deprotection Solution
Cytidine ( N -PAC)-DMTr-3'-oxalyl Icaa CPG
Guanosine ( N -iBu)-DMTr-3'-oxalyl Icaa CPG
Guanosine ( N -PAC)-DMTr-3'-oxalyl Icaa CPG
Uridine-DMTr-3'-oxalyl Icaa CPG
(4)-TBDMS protected 3'-Polystyrene
Adenosine ( N -Bz)-DMTr-3'-succinyl Polystyrene
Cytidine ( N -Ac)-DMTr-3'-succinyl Polystyrene
Cytidine ( N -Bz)-DMTr-3'-succinyl Polystyrene
Guanosine ( N -iBu)-DMTr-3'-succinyl Polystyrene
Uridine-DMTr-3'-succinyl Polystyrene
(5)-TBDMS protected-3'-Non-clevable long chain spacer
2'-TBDMS Guanosine ( N -iBu)-DMTr-3'-non-clevable long chain space
(6)-TOM protected 3'-CPG
2'-TOM-Adenosine ( N -Ac)-DMTr-3'-Icaa CPG
2'-TOM-Cytidine ( N -Ac)-DMTr-3'-Icaa CPG
2'-TOM-Guanosine ( N -Ac)-DMTr-3'-Icaa CPG
2'-TOM-Uridine-DMTr-3'-Icaa CPG

C: Backbone modification:Methyl Phosphoramidite

P-O -Methyl-adenosine ( N -Bz)-DMTr-3'-CEP
P-O -Methyl-adenosine ( N -Bz)-MMTr-3'-CEP
P-O -Methyl-adenosine ( N -PAC)-DMTr-3'-CEP
P-O -Methyl-adenosine ( N -PAC)-MMTr-3'-CEP
P-O -Methyl-cytidine ( N -Bz)-DMTr-3'-CEP
P-O -Methyl-cytidine ( N -PAC)-DMTr-3'-CEP
P-O -Methyl-guanosine ( N -iBu)-DMTr-3'-CEP
P-O -Methyl-guanosine ( N -iBu)-MMTr-3'-CEP
P-O -Methyl-guanosine ( N -PAC)-DMTr-3'-CEP
P-O-Methyl-guanosine ( N -PAC)-MMTr-3'-CEP
P-O -Methyl-uridine-DMTr-3'-CEP

RNA: 5'→ 3' Synthesis

A: CE Phophoroamidites: TBDMS Protected

A: CE Phosphoramidites: TBDMS Protected
Adenosine ( N -Bz)-DMTr-5'-CEP
Cytidine ( N -Ac)-DMTr-5'-CEP
Cytidine ( N -Bz)-DMTr-5'-CEP
Guanosine ( N -iBu)-DMTr-5'-CEP
Guanosine ( N -iprPAC)-DMTr-5'-CEP
Uridine-DMTr-5'-CEP
B: Supports-TBDMS protected 5'-CPG
Adenosine ( N -Bz)-DMTr-5'-Icaa CPG
Cytidine ( N -Ac)-DMTr-5'-Icaa CPG
Cytidine ( N -Bz)-DMTr-5'-Icaa CPG
Guanosine ( N -iBu)-DMTr-5'-Icaa CPG
Uridine-DMTr-5'-Icaa CPG

Minor RNA Bases

A: Minor RNA Phosphoramidites

(1)-TBDMS Protected RNA Phosphoramidites
2,2'-Anhydro-uridine-DMTr-3'-CEP
2-Amino-adenosine-DMTr-3'-CEP, (2,6-Diamino Purine DMTr-3'-CEP)
2-Amino-purine ( N -DMF)-DMTr-3'-CEP
2-Amino-purine ( N -iBu)-DMTr-3'-CEP
2-One-pyridine-DMTr-3'-CEP; Zebularine CEP
4-Triazolyl-uridine-DMTr-3'-CEP
4-Thio-uridine-DMTr-3'-CEP
2-Thio-uridine-DMTr-3'-CEP
5-Bromo-cytidine ( N -Bz)-DMTr-3'-CEP
5-Bromo-uridine-DMTr-3'-CEP
5-Fluoro-2'-deoxyuridine-DMTr-3'-CEP
5-Iodo-cytidine ( N -Bz)-DMTr-3'-CEP
5-Iodo-uridine-DMTr-3'-CEP
5-Methyl-cytidine ( N -Bz)-DMTr-3'-CEP
8-Bromo-adenosine ( N -DBF)-DMTr-3'-CEP
8-Bromo-adenosine ( N -DMF)-DMTr-3'-CEP
8-Bromo-guanosine ( N -DMF)-DMTr-3'-CEP
8-methyl-guanosine ( N -iBu)-DMTr-3'-CEP
8-Oxo-7-allyl-guanosine ( N -iBu)-DMTr-3'-CEP
8-Oxo-guanosine ( N -DMF)-DMTr-3'-CEP
Inosine-DMTr-3'-CEP
N 3 -Methyl-thymidine-DMTr-3'-CEP
N 3 -Methyl-uridine-DMTr-3'-CEP
N 3 -Thiobenzoylethyl-uridine-DMTr-3'-CEP
N 6 , N 6 -Dimethyl-adenosine-5'-DMTr-3'-CEP
N 6 -Benzyl-adenosine-DMTr-3'-CEP
N 6 -isopentenyl-adenosine-DMTr-3'-CEP
N 4 -Ethyl-cytidine-DMTr-3'-CEP
Purine-riboside-DMTr-3'-CEP; Nebularine CEP
(2)Amino TFA Protected RNA Phosphoramidites
2'-Amino(TFA)-cytidine ( N -Bz)-DMTr-3'-CEP
2-Amino-2'-Amino (TFA)-uridine-DMTr-3'-CEP
5'-Amino (TFA)-cytidine ( N -Ac)-3'-CEP
(3)-Acetyl Protected RNA Phosphoramidites
2',3'-Diacetyl-guanosine ( N -iBu)-5'-CEP
2',3'-Diacetyl-uridine-5'-CEP

B: Supports-Minor-RNA-TBDMS Protected 3'-CPG

(1)-TBDMS Protected RNA 3'-CPG
2,2'-Anhydro-uridine-DMTr-3'-Icaa CPG
2-Amino-adenosine-DMTr-3'-Icaa CPG
2-Amino-purine-DMTr-3'-Icaa CPG
2-One-pyridine-DMTr-3'-Icaa CPG; Zebularine CPG
5-Bromo-cytidine ( N -Bz)-DMTr-3'-Icaa CPG
5-Bromo-uridine-DMTr-3'-Icaa CPG
5-Fluoro-uridine-DMTr-3'-Icaa CPG
5-Iodo-cytidine ( N -Bz)-DMTr-3'-Icaa CPG
5-Iodo-uridine-DMTr-3'-Icaa CPG
5-Methyl-cytidine ( N -Bz)-DMTr-3'-Icaa CPG
7-Deaza-adenosine ( N -Bz)-DMTr-3'-Icaa CPG; Tubercidin CPG
7-Deaza-guanosine ( N -iBu)-DMTr-3'-Icaa CPG
8-Bromo-adenosine ( N -DBF)-DMTr-3'-Icaa CPG
8-Methyl-guanosine ( N -iBu)-DMTr-3'-Icaa CPG
Adenosine ( N -Ac)-DMTr-3'-Icaa CPG
Adenosine ( N -Bz)-DMTr-3'-Icaa CPG
Cytidine ( N -Ac)-DMTr-3'-Icaa CPG
Cytidine ( N -Bz)-DMTr-3'-Icaa CPG
Guanosine ( N -iBu)-DMTr-3'-Icaa CPG
Inosine-DMTr-3'-Icaa CPG
Iso-Cytidine ( N -DBF)-DMTr-3'-Icaa CPG
Iso-Guanosine ( N -DBF)-DMTr-3'-Icaa CPG
N^3 -Methyl-thymidine-DMTr-3'-Icaa CPG

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