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Reagents for Nucleic Acid Chemistry

L L • November 24, 2017
Cover Image: Reagents for Nucleic Acid Chemistry

Reagents for Nucleic Acid Chemistry

See the full list of in-house Reagents used in our synthesis

Optimized Nucleotide Synthesis

Our nucleotide synthesis is modeled to introduce technical & chemical optimization from start to finish. We achieve that by utilizing our precision arsenal of formulations to aid & improve very specific moments throughout our solid-phase production. Activation, sulfurizing, phosphorylating and capping reagents help add an extra layer of customization to every project we synthesize. NHS Esters enhance affinity and fluorescence and our mono-,di-, triphosphates offer more control to certain chemical reactions.

Reagents for nucleic acid chemistry

A: Activation Reagents
1 H -1,2,4-Triazole, (1,2,4-Triazole)
1 H -Imidazole-4,5-dicarbonitrile, (Dicyanoimidazole (DCI))
5-Benzyl-thio-1-H-tetrazole (BMT)
5-Ethyl-thio-1-H-tetrazole (ETT)
Diisopropyl-ammonium-1 H -tetrazolide
Dimethoxytrityl-Chloride; DMTr-Chloride
Mesitylene Sulphonyl-3-Nitro-1,2,4-Triazole (MSNT))
Monoimethoxytrityl-Chloride; MMTr-Chloride
Trimethoxytrityl-Chloride; TMTr-Chloride
B: Beaucage Reagents & Sufurizing reagents
Phenylacetyl-Disulfide (PADS)
Silanized Bottle (for Beaucage Reagent)
DDTT ((Dimethylamino-methylidene)amino)-3 H -1,2,4-dithiazoline-3-thione / Sulfurizing Reagent
3 H -1,2-Benzodithiol-3-one-1,1-dioxide/ Sulfurizing Reagent / Sulfurizing Reagent (Beaucage Reagent)
C: Phosphorylating Reagents
Dichloromethoxy-phosphite
2-Cyanoethyl- N , N , N , N -teraisopropylphosphane
Bis (diisopropylamino)-chlorophosphine
Cyanoethyl-dichlorophosphite
Diethoxy- N , N -diisopropyl-phosphoramidite
Diethyl-phosphorochloride
Ethylene-glycol-morpholino phosphoramidite
Methoxy- N , N , N , N -tetraisopropylphosphane
N , N -Diisopropylamino-Cyanoethyl phosphonamidic-chloride
N , N -Diisopropylamino-methyl-phosphonamidic-chloride
N , N -Diisopropyl-methoxy-phosphonamidic-Cl
O -Chlorophenyl-phosphorodichloridate
P -Ethoxy-Chloro-Reagent
D: Nucleoside Synthesis Reagents
4-Isopropyl-Phenoxy-Acetyl-Chloride
Bis-Silyating Reagent
E: Sugars, Purines & Pyrimidines
1,3,5-Tri – O -acetyl-2-deoxy- β -L-ribose
1,3,5-Tri– O -acetyl-2-deoxy- β -D-ribose
1-Alpha-Chloro-3,5-ditoluoyl-2-deoxy- β -D-ribose
1- O -Methyl-2,3,5-tri- O -benzoyl- β -D-ribose
2,3,5- O -Tribenzoyl- β -D-Ribofuranosyl-1-Acetate
2-Deoxy- β -D-ribose
2-Deoxy- β -L-ribose
6-Chloro-7-deaza-Guanine
6-Chloro-7-deaza-Purine
6-Chloro-Guanine
6-Chloro-Purine

NHS ester/Monophosphate/Diphosphate: NHS esters

A: Fluorescein
5-Fluorescein-Dipivalate-NHS Ester (5-FAM Dipivalate NHS Ester)\"
5-Fluorescein-NHS Ester(5-FAM NHS Ester)
6-Fluorescein-Dipivalate-NHS Ester (6-FAM Dipivalate NHS Ester)
6-Fluorescein-NHS Ester (6-FAM NHS Ester)
B: Biotin
Biotin-Amido-Caproate- N -Hydroxy
Biotin-Ester ( N -Hydroxysuccinimide)
Biotin-X-Y-SSE (Biotinamidohexanoyl-amidobutanoyl Succinimidyl ester)

Monophosphates

A: Deoxy N -Alkylated monophosphates
N 1 -Methyl-deoxyadenosine-5’-monophosphate
N 3 -Methyl-deoxycytidine-5’-monophosphate
N 6 -Methyl-deoxyadenosine-5’-monophosphate
B: Etheno deoxy & ribo monophosphates
Etheno-deoxycytidine-5’-monophosphate
Etheno-ribocytidine-5’-monophosphate
C: 7-Deaza deoxymonophosphate
7-Deaza-deoxyadenosine-5’-monophosphate
D: 2’- O -Methyl-ribo monophosphates
2’- O -Methyl-adenosine ( N 6 -Benzyl)-5’-monophosphate
2’- O -Methyl-cytidine-5’-monophosphate
2’- O -Methyl-guanosine-5’-monophosphate
E: β -L-ribo monophosphates
β -L-Adenosine-5’-monophosphate sodium salt
β -L-Uridine-5’-monophosphate sodium salt
F: 3'-Substituted-ribo monophosphates
3'-Amino-guanosine-5’-monophosphate
3'-Methyl-guanosine-5’-monophosphate
G: ribo monophosphate
Thymidine-5’-monophosphate
H: Iso ribo monophosphate
Iso-guanosine ( N -iBu)-5’-monophosphate

Diphosphates

A: 2'- O -Methyl ribo 3’,5’-diphosphates
2'- O -Methyl-adenosine-3’,5’-diphosphate disodium salt
2'- O -Methyl-cytidine-3’,5’-diphosphate disodium salt
2'- O -Methyl-guanosine-3’,5’-diphosphate disodium salt
2'- O -Methyl-uridine-3’,5’-diphosphate disodium salt
B: Ribo U 5'-diphoosphates
Uridine-5’-diphosphate
Uridine-5’-diphosphate disodium salt

Triphosphates

A: Etheno deoxy 5’-triphosphates
Etheno-deoxyadenosine-5’-triphosphate disodium salt
Etheno-deoxycytidine-5’-triphosphate disodium salt
B: 7-Deaza-deoxy 5’-triphosphates
7-Deaza-deoxyadenosine-5’-triphosphate disodium salt
7-Deaza-deoxyguanosine-5’-triphosphate disodium salt
C: Iso deoxy Triphosphate
Iso-deoxyguanosine-5’-triphosphate disodium salt
D: 7-Deaza-7-Propargylamine, dideoxy Triphosphates
7-Deaza-7-propargylamine-2',3'-dideoxyadenosine-5’-triphosphate
7-Deaza-7-propargylamine-2',3'-dideoxyadenosine-5’-triphosphate disodium salt
7-Deaza-7-propargylamine-2',3'-dideoxyguanosine-5’-triphosphate disodium salt
E: 5-Propargyl amine-2',3'-Dideoxy Triphosphates
5-Propargylamine-2',3'-dideoxycytidine-5’-triphosphate
5-Propargylamine-2',3'-dideoxycytidine-5’-triphosphate disodium salt
5-Propargylamine-2',3'-dideoxyuridine-5’-triphosphate disodium salt
F: 2',3'-Dideoxy G Triphosphate
2',3'-Dideoxyguanosine-5’-triphosphate
G: 2'- O -Methyl-ribo 5’-triphosphates
2'- O -Methyl-adenosine-5’-triphosphate disodium salt
2'- O -Methyl-cytidine-5’-triphosphate disodium salt
2'- O -Methyl-guanosine-5’-triphosphate disodium salt
2'- O -Methyl-uridine-5’-triphosphate disodium salt
H: Ara-ribo Triphosphates
Ara-adenosine-5’-triphosphate disodium salt
Ara-cytidine-5’-triphosphate disodium salt
Ara-guanosine-5’-triphosphate disodium salt
Ara-uridine-5’-triphosphate disodium salt
I: Ara-2'- O -Methyl-ribo Triphosphates
Ara-(2'- O -Methyl)-adenosine-5’-triphosphate disodium salt
Ara-(2'- O -Methyl)-cytidine-5’-triphosphate disodium salt
Ara-(2'- O -Methyl)-guanosine-5’-triphosphate disodium salt
Ara-(2'- O -Methyl)-uridine-5’-triphosphate disodium salt
J: Iso ribo triphosphate
Iso-Guanosine-5’-triphosphate disodium salt

Solvents/Reagents-DNA Synthesis

A: PolyPlex Oligo-Synthesizer
Acetonitrile Anhydrous (Phosphoramidite Diluent & Washings), PolyPlex Oligonucleotide Synthesizer
Acetonitrile Wash Grade,PolyPlex Oligonucleotide Synthesizer
Activation Reagent (0.25M 4,5-Dicyanoimidazole/Acetonitrile), PolyPlex Oligonucleotide Synthesizer
Activation Reagent (0.25M 5-Ethylthio Tetrazole/Acetonitrile), PolyPlex Oligonucleotide Synthesizer
Activation Reagent (0.45M 5-Ethylthio Tetrazole/Acetonitrile), PolyPlex Oligonucleotide Synthesizer
Activation Reagent (BMT Solution) (0.3M Benzylthio Tetrazole/Acetonitrile) PolyPlex Oligonucleotide Synthesizer
AMA Reagent, PolyPlex Oligonucleotide Synthesizer
CAP A (Acetic Anhydride/Pyridine/THF),PolyPlex Oligonucleotide Synthesizer
CAP B (10% N -Methylimidazole/THF),PolyPlex Oligonucleotide Synthesizer
CAP B (16% N -Methylimidazole/THF), PolyPlex Oligonucleotide Synthesizer
DDTT Solution 1 [0.05M] (Sulfurizing Reagent), PolyPlex Oligonucleotide Synthesizer
DDTT Solution 1 [0.10M] (Sulfurizing Reagent), PolyPlex Oligonucleotide Synthesizer
DMTr Removal Reagent (3% Dichloracetic Acid/Dichloromethane), PolyPlex Oligonucleotide Synthesizer
DMTr Removal Reagent (3% Trichloracetic Acid/Dichloromethane), PolyPlex Oligonucleotide Synthesizer
Oxidation Solution (0.02M Iodine/Pyridine/H2O/THF), PolyPlex Oligonucleotide Synthesizer
Oxidation Solution (0.1M Iodine/Pyridine/H2O/THF), PolyPlex Oligonucleotide Synthesizer
Silanized Bottles for Beaucage Reagent, PolyPlex Oligonucleotide Synthesizer
Sulfurizing Reagent (Beaucage Reagent) for Introduction of Phosphorothioate (S-oligonucleotide), PolyPlex Oligonucleotide Synthesizer
Thiophenol/Triethylamine/Dioxane, PolyPlex Oligonucleotide Synthesizer
B: MerMade Oligo-Synthesizer
Acetonitrile Anhydrous (Phosphoramidite Diluent & Washings), MerMade Oligonucleotide Synthesizer
Acetonitrile Wash Grade, MerMade Oligonucleotide Synthesizer
Activation Reagent (0.25M 4,5-Dicyanoimidazole/Acetonitrile), MerMade Oligonucleotide Synthesizer
Activation Reagent (0.25M 5-Ethylthio Tetrazole/Acetonitrile), MerMade Oligonucleotide Synthesizer
Activation Reagent (0.45M 5-Ethylthio Tetrazole/Acetonitrile), MerMade Oligonucleotide Synthesizer
Activation Reagent (BMT Solution) (0.3M Benzylthio Tetrazole/Acetonitrile) MerMade Oligonucleotide Synthesizer
AMA Reagent, MerMade Oligonucleotide Synthesizer
CAP A (Acetic Anhydride/Pyridine/THF),MerMade Oligonucleotide Synthesizer
CAP B (10% N -Methylimidazole/THF), MerMade Oligonucleotide Synthesizer
CAP B (16% N -Methylimidazole/THF), MerMade Oligonucleotide Synthesizer
DDTT Solution 1 [0.05M] (Sulfurizing Reagent), MerMade Oligonucleotide Synthesizer
DDTT Solution 1 [0.10M] (Sulfurizing Reagent), MerMade Oligonucleotide Synthesizer
DMTr Removal Reagent (2.5% Dichloracetic Acid/Dichloromethane), MerMade Oligonucleotide Synthesizer
DMTr Removal Reagent (3% Trichloracetic Acid/Dichloromethane), MerMade Oligonucleotide Synthesizer
Oxidation Solution (0.02M Iodine/Pyridine/H2O/THF), MerMade Oligonucleotide Synthesizer
Oxidation Solution (0.1M Iodine/Pyridine/H2O/THF), MerMade Oligonucleotide Synthesizer
Silanized Bottles for Beaucage Reagent, MerMade Oligonucleotide Synthesizer
Sulfurizing Reagent (Beaucage Reagent) for Introduction of Phosphorothioate (S-oligonucleotide), MerMade Oligonucleotide Synthesizer
Thiophenol/Triethylamine/Dioxane, MerMade Oligonucleotide Synthesizer
C: Expedite Oligo-Synthesizer
Acetonitrile Anhydrous (Phosphoramidite Diluent & Washings), Expedite Oligonucleotide Synthesizer
Acetonitrile Wash Grade, Expedite Oligonucleotide Synthesizer
Activation Reagent (0.25M 4,5-Dicyanoimidazole/Acetonitrile), Expedite Oligonucleotide Synthesizer
Activation Reagent (0.25M 5-Ethylthio Tetrazole/Acetonitrile), Expedite Oligonucleotide Synthesizer
Activation Reagent (0.45M 5-Ethylthio Tetrazole/Acetonitrile), Expedite Oligonucleotide Synthesizer
Activation Reagent (BMT Solution) (0.3M Benzylthio Tetrazole/Acetonitrile) Expedite Oligonucleotide Synthesizer
AMA Reagent, Expedite Oligonucleotide Synthesizer
CAP A (Acetic Anhydride/Pyridine/THF), Expedite Oligonucleotide Synthesizer
CAP B (10% N -Methylimidazole/THF), Expedite Oligonucleotide Synthesizer
CAP B (16% N -Methylimidazole/THF), Expedite Oligonucleotide Synthesizer
DMTr Removal Reagent (2.5% Dichloracetic Acid/Dichloromethane), Expedite Oligonucleotide Synthesizer
DMTr Removal Reagent (3% Trichloracetic Acid/Dichloromethane), Expedite Oligonucleotide Synthesizer
Oxidation Solution (0.02M Iodine/Pyridine/H2O/THF), Expedite Oligonucleotide Synthesizer
Oxidation Solution (0.1M Iodine/Pyridine/H2O/THF), Expedite Oligonucleotide Synthesizer
Silanized Bottles for Beaucage Reagent, Expedite Oligonucleotide Synthesizer
Sulfurizing Reagent (Beaucage Reagent) for Introduction of Phosphorothioate (S-oligonucleotide), Expedite Oligonucleotide Synthesizer
Thiophenol/Triethylamine/Dioxane, Expedite Oligonucleotide Synthesizer
D: Expedite Oligo-Synthesizer
Activator (Benzyl thio tetrazole; 0.2M in acetonitrile) Akta Oligonucleotide Synthesizer
Cap A ( N -Methyl imidazole; 20% in Acetonitrile) Akta Oligonucleotide Synthesizer
Cap B1 (Acetic Anhydride; 40% (v:v) in Acetonitrile) Akta Oligonucleotide Synthesizer
Cap B2 (Symmetrical Collidine; 60% (v:v) in Acetonitrile, Akta Oligonucleotide Synthesizer
Deblock (3% DCA in Toluene) Akta Oligonucleotide Synthesizer
Oxidizer 4 Liter 50 mM Iodine in 10% Water/Pyridine) Akta Oligonucleotide Synthesizer
E: ABI 3900 Oligo-Synthesizer
Acetonitrile Anhydrous (Phosphoramidite Diluent & Washings), ABI 3900 Oligonucleotide Synthesizer
Acetonitrile Wash Grade, ABI 3900 Oligonucleotide Synthesizer
Activation Reagent (0.25M 4,5-Dicyanoimidazole/Acetonitrile), ABI 3900 Oligonucleotide Synthesizer
Activation Reagent (0.25M 5-Ethylthio Tetrazole/Acetonitrile)
Activation Reagent (0.45M 5-Ethylthio Tetrazole/Acetonitrile), ABI 3900 Oligonucleotide Synthesizer
Activation Reagent (BMT Solution) (0.3M Benzylthio Tetrazole/Acetonitrile)
AMA Reagent, ABI 3900 Oligonucleotide Synthesizer
CAP A (Acetic Anhydride/Pyridine/THF), ABI 3900 Oligonucleotide Synthesizer
CAP B (10% N -Methylimidazole/THF), ABI 3900 Oligonucleotide Synthesizer
CAP B (16% N -Methylimidazole/THF), ABI 3900 Oligonucleotide Synthesizer
DDTT Solution 1 [0.05M] (Sulfurizing Reagent), ABI 3900 Oligonucleotide Synthesizer
DDTT Solution 1 [0.10M] (Sulfurizing Reagent), ABI 3900 Oligonucleotide Synthesizer
DMT Removal Reagent (3% Dichloracetic Acid/Dichloromethane), ABI 3900 Oligonucleotide Synthesizer
DMT Removal Reagent (3% Trichloracetic Acid/Dichloromethane)
Oxidation Solution (0.02M Iodine/Pyridine/H2O/THF), ABI 3900 Oligonucleotide Synthesizer
Oxidation Solution (0.1M Iodine/Pyridine/H2O/THF), ABI 3900 Oligonucleotide Synthesizer
Silanized Bottles for Beaucage Reagent, ABI 3900 Oligonucleotide Synthesizer
Sulfurizing Reagent (Beaucage Reagent) for Introduction of Phosphorothioate (S-oligonucleotide), ABI 3900 Oligonucleotide Synthesizer
Thiophenol/Triethylamine/Dioxane, ABI 3900 Oligonucleotide Synthesizer
F: ABI Oligo-Synthesizer
Acetonitrile Anhydrous (Phosphoramidite Diluent & Washings), ABI Oligonucleotide Synthesizer
Acetonitrile Wash Grade, ABI Oligonucleotide Synthesizer
Activation Reagent ((0.25M 5-Ethylthio Tetrazole/Acetonitrile), ABI Oligonucleotide Synthesizer
Activation Reagent (0.25M 4,5-Dicyanoimidazole/Acetonitrile), ABI Oligonucleotide Synthesizer
Activation Reagent (0.45M 5-Ethylthio Tetrazole/Acetonitrile), ABI Oligonucleotide Synthesizer
Activation Reagent (BMT Solution) (0.3M Benzylthio Tetrazole/Acetonitrile), ABI Oligonucleotide Synthesizer
AMA Reagent, ABI Oligonucleotide Synthesizer
CAP A (Acetic Anhydride/Pyridine/THF), ABI Oligonucleotide Synthesizer
CAP B (10% N-Methylimidazole/THF), ABI Oligonucleotide Synthesizer
CAP B (16% N-Methylimidazole/THF), ABI Oligonucleotide Synthesizer
DMT Removal Reagent (3% Dichloracetic Acid/Dichloromethane), ABI Oligonucleotide Synthesizer
DMT Removal Reagent (3% Trichloracetic Acid/Dichloromethane), ABI Oligonucleotide Synthesizer
Oxidation Solution (0.02M Iodine/Pyridine/H2O/THF), ABI Oligonucleotide Synthesizer
Oxidation Solution (0.1M Iodine/Pyridine/H2O/THF), ABI Oligonucleotide Synthesizer
Silanized Bottles for Beaucage Reagent, ABI Oligonucleotide Synthesizer
Sulfurizing Reagent (Beaucage Reagent) for Introduction of Phosphorothioate (S-oligonucleotide), ABI Oligonucleotide Synthesizer
Thiophenol/Triethylamine/Dioxane, ABI Oligonucleotide Synthesizer
G: Solvents/Reagents For H -phosphonate Chemistry
Acetonitrile/Pyridine (50:50), Anhydrous (Diluent for Monomers)
Acetonitrile/Pyridine (95:5), Anhydrous (Diluent for Activator)
Acetonitrile/Pyridine (wash solvent)
Activator for monomers and Capping Reagent (Adamantane catbonyl chloride)
Capping for ABI Synthesizers (Isopropyl Phosphite/Acetonitrile/Pyridine)
Dipentaflurophenyl Carbonate (Reagent for H-phosphonate)
Oxidation Solution 1 (Iodine in Pyridine/H2O/THF)
Oxidation Solution 2 (THF/H2O/TEA)
H: Deprotection solution for DNA Synthesis
Ammonia Free Oligo Deprotection Solution
Deprotection solution for Levulinyl
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