DNA Modifiers
Technical Note11/17/2019 2:11 pm

Published on November 17, 2019

Modifying DNA during synthesis involves a bit of creativity along with untraditional chemistry throughout the synthesis workflow. Different classes of modifiers have grown over time, but the most tried and true begins with 3’ or 5’ amino modifiers and the use of spacers and “branching” modifications. This paved the way for introducing more elaborate modifiers into sequences, such as compounded functional groups and a wide array of labels.

See the full list of in-house DNA Modifiers used in our synthesis below: 

DNA Modifiers

A: Chemical Phosphorylation and Supports 
5'- Phosphorylation; Bis-cyanoethyl- N , N -diisopropyl CEP 
3'-Phosphate-ON Icaa CPG 
5-Phosphorylation (generates DMTr color)-(5-Phosphate-ON Reagent) 
B: Amino Modifiers and Supports 
3'-Amino (Fmoc)-modifier DMTr CEP 
3'-Amino (Fmoc)-modifier-C3 CPG 
3'-Amino (Fmoc)-modifier-C7 CPG 
3'-Amino (TFA)-modifier-spacer 6 Polystyrene 
3'-Amino (TFA)-modifier-spacer 7-Icaa CPG 
3'-Amino (trityl)-modifier-dT CPG 
3'-Amino-modifier-C6-phthalamido CPG 
5'-Amino (Fmoc)-modifier-C6 CEP 
5'-Amino (Fmoc)-modifier-C7 CEP 
5'-Amino (MMTr)-modifiers-C6 CEP 
5'-Amino (TFA)-modifier-C12 CEP 
5'-Amino (TFA)-modifiers-C4 CEP 
5'-Amino (TFA)-modifiers-C5 CEP 
5'-Amino (TFA)-modifiers-C6 CEP 
5'-Amino(MMT)-modifier-C12 CEP 
Amino-modifier-13-dC CE; deoxy Cytidine  N 4 Amino Linker CEP 
Amino-modifier-13-dC CPG 
Amino-modifier-C6-dT CPG 
Amino-modifier-C6-phthalamido CEP 
Amino-modifiers-C6-dT CEP 
DMT-free Amine C-7 Icaa CPG 
ssR-Me Amino Linker 
ssR-H Amino Linker 
C: Spacer Modifiers and Supports 
Butyl CPG (for 3’-Butanol Spacer) 
DMTr-Butane-diol phosphoramidite; C4 Spacer 
DMTr-Butanol polystyrene 
DMTr-C3 lcaa CPG 
DMTr-Dodecane-diol phosphoramidite; C12 Spacer 
DMTr-Ethane-diol phosphoramidite; C2 Spacer 
DMTr-Hexa-Ethyloxy-glycol phosphoramidite; Spacer 18 
DMTr-Hexane-diol phosphoramidite; C6 Spacer 
DMTr-Nonane-diol phosporamidite; C9 Spacer 
DMTr-Propane-diol phosphoramidite; C3 Spacer 
DMTr-Tetraethyloxy-glycol phosphoramidite; Spacer 12 
DMTr-Triethyloxy-glycol phosphoramidite; Spacer 9 
Glyceryl CPG; 1-DMTr-2-OAc-Glyceryl Succinate attached to lcaa CPG 
Palmitoyl polystyrene support 
Pentane diol; C5 Spacer 
Polyethyleneglycol 2000 CEP 
Polyethylenglycol 4500 CEP, (Avg. M.W.~4500) 
Polyethylenglycol 4500 CEP, (Avg. M.W.~4500) 
TOM C6 CEP 
D: Thiol Modifiers and Supports 
3'-Thiol-modifiers-C3-S-S CPG 
5'-Thiol (trityl)-modifiers-C6 CEP, 5’-Thiol (trityl)-modifiers-C6 CPG 
5'-Thiol (trityl)-modifiers-dC ( N -Ac) CEP 
5'-Thiol C3 SS modifier 
5'-Thiol-modifiers C6 CEP; 1-Thiobenzoyl-hexanol-6 Cyanoethyl CEP 
Thiol-modifiers-C6-S-S CEP 
Thiol-modifiers-C6-S-S CPG; DMTr-C6-Disulfide Solid Support 
Cyclic Dithiolane Disulfide Phosphoramidite, Cyclic Dithiolane Disulfide lcaa CPG 
E: Branching phosphoramidites and Supports 
Asymmetrical Branching CEP 
Asymmetrical Branching lcaa CPG 
NPPOC-DMT Asymmetrical Branching CEP 
Symmetrical Branching CEP 
Symmetrical Branching Polystyrene Support 
Symmetrical Branching Support lcaa CPG 


Labelling 

A: Biotin Labelling 
Biotin (BB) -TEG CEP 
Biotin (BB)TM CEP 
Biotin (BB)TM CPG; D-(+) Biotin lcaa CPG 
Biotin dT CEP 
Biotin TEG lcaa CPG 
B: Psoralen labelling 
Psoralen C-18 Hexaethyloxyglycol CEP 
Psoralen C-2 CEP 
Psoralen C-4 CEP 
Psoralen C-4 lcaa CPG 
Psoralen C-6 CEP 
Psoralen CEP 
Psoralen Support 
C: Fluorescein Labelling 
3'-Fluorescein-dT CPG 
3'-Fluorescein-Icaa CPG 
5-FAM CPG 
5-Fluorescein CEP 
5'-Fluorescein CPG, 6-FAM lcaa CPG (DMTr) 
5'-Fluorescein-phosphoramidite; 6-FAM 
5'-Hexachloro-fluorescein Phosphoramidite 
5'-Tetrachloro-fluorescein Phosphoramidite 
6-FAM CPG 
DMTr-5-FAM Phosphoramidite 
DMTr-6-FAM Phosphoramidite 
Etheno-adenosine 2'/3'-lcaa CPG 
Etheno-adenosine 2'-TBDMS 3'-lcaa CPG 
Etheno-adenosine CEP; Etheno-2'-O-TBDMS Adenosine CEP 
Etheno-cytidine 2'/3'-lcaa CPG 
Etheno-cytidine 2’-TBDMS 3’-lcaa CPG 
Etheno-cytidine CEP; Etheno-2'-O-TBDMS Cytidine CEP 
Etheno-deoxyadenosine 3'-lcaa CPG 
Etheno-deoxyadenosine CEP 
Etheno-deoxycytidine 3'-lcaa CPG 
Etheno-deoxycytidine CEP 
Fluorescein dT CEP 
Hexachloro-fluorescein Cyclohexyl CEP 
Tetrachloro-fluorescein Cyclohexyl CEP 
D: DNP Labelling 
DNP-TEG CEP 
DNP-TEG-lcaa-CPG 
Naphthyl Red phosphoramidite 
E: Rhodamine (Tamra) labelling 
5'-TAMRA CEP 
6-TAMRA Supports & Columns 
Cocktail for TAMRA 
N 4-6-TAMRA Cytidine-3’- lcaa CPG 
Rox Supports & Columns 
F: Dabcyl Labelling 
3'-Dabcyl CEP 
3'-Dabcyl CPG 
Dabcyl Succinyl diamido Polystyrene Support 
Dabsyl-dT CEP 
G: Cholesterol 
Cholesterol (Plant) TEG CEP 
Cholesterol (TEG) CEP (Will Generate DMT color) 
Cholesterol C4 lcaa CPG 
Cholesterol TEG lcaa CPG 
TEG Cholesterol (Tetra Ethylene Glycol) CEP 
TEG Cholesterol (Tetra Ethylene Glycol) Phosphonate
TEG Cholesterol (Tetra Ethylene Glycol) -H- Phosphonate TEA Salt\" 
H: Tocopherol 
(+)- a -Tocopherol-Phosphoramidite 
I: Carboxyl Generating reagents 
5'-Carboxyl Group Generating Reagent; Thymidine-Succinyl Hexamide CEP 
C-5 Carboxy Introducing Amidite; Deoxy Uridine 5-Methylacrylate CEP 
Hexane-6-Carboxyamido (p-benzaldehyde)- 1-ol CEP 
Undecanoic CEP 
J: Puromycin Labelling 
3'-L-(O-Methyl)-Tyrosine-puromycin-2'- Icaa CPG 
Puromycin-2'-Succinyl Icaa CPG 
A: Chemical Phosphorylation and Supports 
5'- Phosphorylation; Bis-cyanoethyl- N , N -diisopropyl CEP 
3'-Phosphate-ON Icaa CPG 
5-Phosphorylation (generates DMTr color)-(5-Phosphate-ON Reagent) 
B: Amino Modifiers and Supports 
3'-Amino (Fmoc)-modifier DMTr CEP 
3'-Amino (Fmoc)-modifier-C3 CPG 
3'-Amino (Fmoc)-modifier-C7 CPG 
3'-Amino (TFA)-modifier-spacer 6 Polystyrene 
3'-Amino (TFA)-modifier-spacer 7-Icaa CPG