What are phosphoramidites used for?

Phosphoramidites are activated monomers used in solid-phase DNA and RNA oligonucleotide synthesis.

What is the difference between DNA and RNA phosphoramidites?

RNA phosphoramidites include additional 2′-hydroxyl protecting groups, making them more sensitive to moisture and handling conditions.

Why is moisture control important for phosphoramidites?

Moisture can cause premature hydrolysis of phosphoramidites, reducing coupling efficiency and synthesis yield.

Can phosphoramidites be used for long oligonucleotide synthesis?

Yes, high-quality phosphoramidites are essential for achieving good yields in long and complex oligonucleotide sequences.

Are modified phosphoramidites available for custom oligos?

Modified and specialty phosphoramidites are commonly used to introduce functional groups or labels into oligonucleotides.

Phosphoramidites - BOC Sciences

2'-OTBS A(di-Me) amidite

Description: 2'-OTBS A(di-Me) amidite is commonly used in the synthesis of RNA molecules through solid-phase synthesis. This phosphoramidite derivative contains a 2'-O-TBDMS (tert-butyldimethylsilyl) and a 3'-O-CE (2-cyanoethyl) protecting groups, which can be removed under specific conditions after synthesis. The N6,N6-Dimethyl modification on the adenine base can also enhance the specificity and selectivity of RNA interactions with target molecules. This modified adenosine derivative can improve the stability and binding affinity of RNA molecules in various applications such as antisense therapy, RNA interference, and aptamer development.

CAT: BRP-00888

Molecular Formula: C48H66N7O7PSi

Molecular Weight: 912.16

Purity: >95%

Appearance: Off-white solid

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InChIKey: FOBJTSYXSOCKFB-OKNPHDNFSA-N

Solubility: Soluble in Acetonitrile, DMF

IUPAC Name: (2R,3R,4R,5R)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-((tert-butyldimethylsilyl)oxy)-5-(6-(dimethylamino)-9H-purin-9-yl)tetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C48H66N7O7PSi/c1-33(2)55(34(3)4)63(59-29-17-28-49)61-42-40(60-46(43(42)62-64(12,13)47(5,6)7)54-32-52-41-44(53(8)9)50-31-51-45(41)54)30-58-48(35-18-15-14-16-19-35,36-20-24-38(56-10)25-21-36)37-22-26-39(57-11)27-23-37/h14-16,18-27,31-34,40,42-43,46H,17,29-30H2,1-13H3/t40-,42-,43-,46-,63?/m1/s1

Synonyms: N6,N6-Dimethyl Adenosine 2'-TBDMS-3'-CEP; N6,N6-Dimethyl 2'-TBDMS rA 3'-CE phosphoramidite

2'-OTBS N1-Me-A(ClAc) amidite

Description: 2'-OTBS N1-Me-A(ClAc) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of adenine residues modified with a methyl group at the N1 position and protected with chloroacetyl (ClAc) at the amino group into the oligonucleotide sequence. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00889

Molecular Formula: C49H65ClN7O8PSi

Molecular Weight: 974.61

Purity: >95%

Appearance: Off-white solid

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InChIKey: ISUKAHYBQLYEAJ-VPFLNFIBSA-N

Solubility: Soluble in Acetonitrile, DMF

IUPAC Name: (2R,3R,4R,5R)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-((tert-butyldimethylsilyl)oxy)-5-(6-((2-chloroacetyl)imino)-1-methyl-1,6-dihydro-9H-purin-9-yl)tetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C49H65ClN7O8PSi/c1-33(2)57(34(3)4)66(62-28-16-27-51)64-43-40(30-61-49(35-17-14-13-15-18-35,36-19-23-38(59-9)24-20-36)37-21-25-39(60-10)26-22-37)63-47(44(43)65-67(11,12)48(5,6)7)56-32-52-42-45(56)53-31-55(8)46(42)54-41(58)29-50/h13-15,17-26,31-34,40,43-44,47H,16,28-30H2,1-12H3/t40-,43-,44-,47-,66?/m1/s1

Synonyms: 5'-O-DMT-2'-O-TBDMS N1-Me-A(ClAc) 3'-CE Phosphoramidite

2'-OTBS 7De8a-A(dmf) amidite

Description: 2'-OTBS 7De8a-A(dmf) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of adenine residues modified with a 7-deaza-8-azaadenine (7De8a) nucleoside and protected with dimethylformamidine (dmf) into the oligonucleotide sequence. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00890

Molecular Formula: C49H67N8O7PSi

Molecular Weight: 939.18

Purity: >95%

Appearance: Off-white solid

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InChIKey: FFFMJLRLMAOUHM-NWPXMRGSSA-N

Solubility: Soluble in Acetonitrile, DMF

IUPAC Name: (2R,3R,4R,5R)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-((tert-butyldimethylsilyl)oxy)-5-(4-(((dimethylamino)methylene)amino)-1H-pyrazolo[3,4-d]pyrimidin-1-yl)tetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C49H67N8O7PSi/c1-34(2)57(35(3)4)65(61-29-17-28-50)63-43-42(31-60-49(36-18-15-14-16-19-36,37-20-24-39(58-10)25-21-37)38-22-26-40(59-11)27-23-38)62-47(44(43)64-66(12,13)48(5,6)7)56-46-41(30-54-56)45(51-32-52-46)53-33-55(8)9/h14-16,18-27,30,32-35,42-44,47H,17,29,31H2,1-13H3/t42-,43-,44-,47-,65?/m1/s1

Synonyms: 5'-O-DMT-2'-O-TBDMS 7De8a-A(dmf) 3'-CE Phosphoramidite

PHT PEG3 amidite

Description: PHT PEG3 amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00891

CAS: 2170381-91-4

Molecular Formula: C23H34N3O7P

Molecular Weight: 495.51

Purity: >95%

Appearance: Light-yellow oily matter

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InChIKey: UDTLXDXACDJZQQ-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(N(C(C)C)P(OCCC#N)OCCOCCOCCON(C(C1=C2C=CC=C1)=O)C2=O)C

IUPAC Name: 2-cyanoethyl (2-(2-(2-((1,3-dioxoisoindolin-2-yl)oxy)ethoxy)ethoxy)ethyl) diisopropylphosphoramidite

InChI: InChI=1S/C23H34N3O7P/c1-18(2)26(19(3)4)34(32-11-7-10-24)33-17-15-30-13-12-29-14-16-31-25-22(27)20-8-5-6-9-21(20)23(25)28/h5-6,8-9,18-19H,7,11-17H2,1-4H3

Synonyms: Phosphoramidous acid, N,N-bis(1-methylethyl)-, 2-cyanoethyl 2-[2-[2-[(1,3-dihydro-1,3-dioxo-2H-isoindol-2-yl)oxy]ethoxy]ethoxy]ethyl ester

PHT PEG4 amidite

Description: PHT PEG4 amidite is a modified phosphoramidite utilized in oligonucleotide synthesis. This compound is vital for the creation of oligonucleotides with tailored modifications, which find applications across molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00892

CAS: 539820-47-8

Molecular Formula: C25H38N3O8P

Molecular Weight: 539.57

Purity: >95%

Appearance: Light-yellow oily matter

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InChIKey: GRCXVBYRTJTFCI-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCC#N)OCCOCCOCCOCCON1C(=O)C2=CC=CC=C2C1=O

IUPAC Name: 3-[2-[2-[2-[2-(1,3-dioxoisoindol-2-yl)oxyethoxy]ethoxy]ethoxy]ethoxy-[di(propan-2-yl)amino]phosphanyl]oxypropanenitrile

InChI: InChI=1S/C25H38N3O8P/c1-20(2)28(21(3)4)37(35-11-7-10-26)36-19-17-33-15-13-31-12-14-32-16-18-34-27-24(29)22-8-5-6-9-23(22)25(27)30/h5-6,8-9,20-21H,7,11-19H2,1-4H3

Synonyms: Phosphoramidous acid, N,N-bis(1-methylethyl)-, 2-cyanoethyl 2-[2-[2-[2-[(1,3-dihydro-1,3-dioxo-2H-isoindol-2-yl)oxy]ethoxy]ethoxy]ethoxy]ethyl ester; 2-cyanoethyl (2-(2-(2-(2-((1,3-dioxoisoindolin-2-yl)oxy)ethoxy)ethoxy)ethoxy)ethyl) diisopropylphosphoramidite

Cyanoethoxycarbonyl C6 amine amidite

Description: Cyanoethoxycarbonyl C6 amine amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00893

CAS: 242147-85-9

Molecular Formula: C19H35N4O4P

Molecular Weight: 414.49

Purity: >98%

Appearance: Light-yellow oily matter

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InChIKey: OXPJJHKDHVDTKR-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCCCCCNC(=O)OCCC#N)OCCC#N

IUPAC Name: 2-cyanoethyl N-[6-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxyhexyl]carbamate

InChI: InChI=1S/C19H35N4O4P/c1-17(2)23(18(3)4)28(27-16-10-12-21)26-15-8-6-5-7-13-22-19(24)25-14-9-11-20/h17-18H,5-10,13-16H2,1-4H3,(H,22,24)

Synonyms: 2-cyanoethyl (6-(((2-cyanoethoxy)(diisopropylamino)phosphaneyl)oxy)hexyl)carbamate

Cbz C2 amine amidite

Description: Cbz C2 amine amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00894

CAS: 133339-58-9

Molecular Formula: C19H30N3O4P

Molecular Weight: 395.44

Purity: >95%

Appearance: Light-yellow oily matter

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InChIKey: BFXBTPRPHVBFNA-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCC#N)OCCNC(=O)OCC1=CC=CC=C1

IUPAC Name: benzyl N-[2-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxyethyl]carbamate

InChI: InChI=1S/C19H30N3O4P/c1-16(2)22(17(3)4)27(25-13-8-11-20)26-14-12-21-19(23)24-15-18-9-6-5-7-10-18/h5-7,9-10,16-17H,8,12-15H2,1-4H3,(H,21,23)

Synonyms: 5-Oxa-2,7-diaza-6-phosphanonanoic acid, 6-(2-cyanoethoxy)-8-methyl-7-(1-methylethyl)-, phenylmethyl ester; benzyl (2-(((2-cyanoethoxy)(diisopropylamino)phosphaneyl)oxy)ethyl)carbamate

Cbz C6 amine amidite

Description: Cbz C6 amine amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00895

CAS: 1235579-76-6

Molecular Formula: C23H38N3O4P

Molecular Weight: 451.55

Purity: >95%

Appearance: Light-yellow oily matter

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InChIKey: DEWXQEGATRHNSP-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCCCCCNC(=O)OCC1=CC=CC=C1)OCCC#N

IUPAC Name: benzyl N-[6-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxyhexyl]carbamate

InChI: InChI=1S/C23H38N3O4P/c1-20(2)26(21(3)4)31(30-18-12-15-24)29-17-11-6-5-10-16-25-23(27)28-19-22-13-8-7-9-14-22/h7-9,13-14,20-21H,5-6,10-12,16-19H2,1-4H3,(H,25,27)

Synonyms: 9-Oxa-2,11-diaza-10-phosphatridecanoic acid, 10-(2-cyanoethoxy)-12-methyl-11-(1-methylethyl)-, phenylmethyl ester; benzyl (6-(((2-cyanoethoxy)(diisopropylamino)phosphaneyl)oxy)hexyl)carbamate

Chloracetyl C6 amine amidite

Description: Chloracetyl C6 amine amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00896

CAS: 220555-61-3

Molecular Formula: C17H33ClN3O3P

Molecular Weight: 393.90

Purity: >95%

Appearance: Light-yellow oily matter

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InChIKey: LHDZYEHTVUMWHK-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCCCCCNC(=O)CCl)OCCC#N

IUPAC Name: 2-chloro-N-[6-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxyhexyl]acetamide

InChI: InChI=1S/C17H33ClN3O3P/c1-15(2)21(16(3)4)25(24-13-9-10-19)23-12-8-6-5-7-11-20-17(22)14-18/h15-16H,5-9,11-14H2,1-4H3,(H,20,22)

Synonyms: 6-[(2-Chloroacetyl)amino]hexyl 2-cyanoethyl N,N-bis(1-methylethyl)phosphoramidite; 6-(2-chloroacetamido)hexyl (2-cyanoethyl) diisopropylphosphoramidite

O1-DMTr-O3-(Fmoc)amino-PEG3 Glycerin amidite

Description: O1-DMTr-O3-(Fmoc)amino-PEG3 Glycerin amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound enables the synthesis of oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00897

Molecular Formula: C54H66N3O10P

Molecular Weight: 948.11

Purity: >95%

Appearance: Light-yellow oily matter

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InChIKey: VWAHQMAILUKYAF-UHFFFAOYSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(N(C(C)C)P(OCCC#N)OC(COC(C1=CC=CC=C1)(C2=CC=C(OC)C=C2)C3=CC=C(OC)C=C3)COCCOCCOCCNC(OCC4C5=C(C=CC=C5)C6=C4C=CC=C6)=O)C

IUPAC Name: (9H-fluoren-9-yl)methyl (4-(((2-cyanoethoxy)(diisopropylamino)phosphaneyl)oxy)-1,1-bis(4-methoxyphenyl)-1-phenyl-2,6,9,12-tetraoxatetradecan-14-yl)carbamate

InChI: InChI=1S/C54H66N3O10P/c1-40(2)57(41(3)4)68(66-31-14-29-55)67-47(38-65-54(42-15-8-7-9-16-42,43-21-25-45(59-5)26-22-43)44-23-27-46(60-6)28-24-44)37-63-36-35-62-34-33-61-32-30-56-53(58)64-39-52-50-19-12-10-17-48(50)49-18-11-13-20-51(49)52/h7-13,15-28,40-41,47,52H,14,30-39H2,1-6H3,(H,56,58)

ANA 2'-OAc C(Ac) amidite

Description: ANA 2'-OAc C(Ac) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of cytidine residues modified with 2'-O-acetyl and protected with acetyl (Ac) into the oligonucleotide sequence. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00898

CAS: 373645-92-2

Molecular Formula: C43H52N5O10P

Molecular Weight: 829.89

Purity: >98%

Appearance: Off-white solid

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InChIKey: JCLYEEIHQSPYLZ-ZDPTUIABSA-N

Solubility: Soluble in Acetonitrile, DMF

IUPAC Name: (2R,3S,4R,5R)-2-(4-acetamido-2-oxopyrimidin-1(2H)-yl)-5-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-(((2-cyanoethoxy)(diisopropylamino)phosphaneyl)oxy)tetrahydrofuran-3-yl acetate

InChI: InChI=1S/C43H52N5O10P/c1-28(2)48(29(3)4)59(55-26-12-24-44)58-39-37(57-41(40(39)56-31(6)50)47-25-23-38(45-30(5)49)46-42(47)51)27-54-43(32-13-10-9-11-14-32,33-15-19-35(52-7)20-16-33)34-17-21-36(53-8)22-18-34/h9-11,13-23,25,28-29,37,39-41H,12,26-27H2,1-8H3,(H,45,46,49,51)/t37-,39-,40+,41-,59?/m1/s1

Synonyms: N-[1-[2-O-Acetyl-5-O-[bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-β-D-arabinofuranosyl]-1,2-dihydro-2-oxo-4-pyrimidinyl]acetamide; 2'-OAc-C(Ac)-ANA-CE-Phosphoramidite; DMTr-2'-ara-OAc-C(Ac)-3'-CE-Phosphoramidite

ANA 2'-OMe C(Bz) amidite

Description: ANA 2'-OMe C(Bz) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of cytidine residues modified with 2'-O-methyl and protected with benzoyl (Bz) into the oligonucleotide sequence. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00899

CAS: 373645-97-7

Molecular Formula: C47H54N5O9P

Molecular Weight: 863.95

Purity: >95%

Appearance: Off-white solid

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InChIKey: JFFSFQRVIPPCBC-XBCOPKIOSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCC#N)OC1C(OC(C1OC)N2C=CC(=NC2=O)NC(=O)C3=CC=CC=C3)COC(C4=CC=CC=C4)(C5=CC=C(C=C5)OC)C6=CC=C(C=C6)OC

IUPAC Name: N-[1-[(2R,3S,4R,5R)-5-[[bis(4-methoxyphenyl)-phenylmethoxy]methyl]-4-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxy-3-methoxyoxolan-2-yl]-2-oxopyrimidin-4-yl]benzamide

InChI: InChI=1S/C47H54N5O9P/c1-32(2)52(33(3)4)62(59-30-14-28-48)61-42-40(60-45(43(42)57-7)51-29-27-41(50-46(51)54)49-44(53)34-15-10-8-11-16-34)31-58-47(35-17-12-9-13-18-35,36-19-23-38(55-5)24-20-36)37-21-25-39(56-6)26-22-37/h8-13,15-27,29,32-33,40,42-43,45H,14,30-31H2,1-7H3,(H,49,50,53,54)/t40-,42-,43+,45-,62?/m1/s1

Synonyms: (2R,3R,4S,5R)-5-(4-benzamido-2-oxopyrimidin-1(2H)-yl)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-methoxytetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite; N-[1-[2-O-Methyl-5-O-[bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-β-D-arabinofuranosyl]-1,2-dihydro-2-oxo-4-pyrimidinyl]benzamide; 2'-OMe-C(Bz)-ANA-CE-Phosphoramidite; DMTr-2'-ara-OMe-C(Bz)-3'-CE-Phosphoramidite; 5'-O-DMTr-2'-ara-OMe-C(Bz)-3'-CE-Phosphoramidite; N4-benzoyl-(5'-O-(4,4'-dimethoxytrityl)-2'-O-methyl-arabinocytidine-3'-[(2-cyanoethyl)-(N,N-diisopropropyl)]-Phosphoramidite

ANA 2'-OMe G(iBu) amidite

Description: ANA 2'-OMe G(iBu) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of guanosine residues modified with 2'-O-methyl and protected with isobutyl (iBu) into the oligonucleotide sequence. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00900

CAS: 1239669-74-9

Molecular Formula: C45H56N7O9P

Molecular Weight: 869.96

Purity: >95%

Appearance: Off-white solid

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InChIKey: IRRDHRZUOZNWDJ-HHNCBLOXSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: N#CCCOP(OC1C(OC(N2C=NC=3C(=O)N=C(NC(=O)C(C)C)NC32)C1OC)COC(C=4C=CC=CC4)(C5=CC=C(OC)C=C5)C6=CC=C(OC)C=C6)N(C(C)C)C(C)C

IUPAC Name: (2R,3R,4S,5R)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-5-(2-isobutyramido-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-methoxytetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C45H56N7O9P/c1-28(2)41(53)49-44-48-40-37(42(54)50-44)47-27-51(40)43-39(57-9)38(61-62(59-25-13-24-46)52(29(3)4)30(5)6)36(60-43)26-58-45(31-14-11-10-12-15-31,32-16-20-34(55-7)21-17-32)33-18-22-35(56-8)23-19-33/h10-12,14-23,27-30,36,38-39,43H,13,25-26H2,1-9H3,(H2,48,49,50,53,54)/t36-,38-,39+,43-,62?/m1/s1

Synonyms: DMTr-2'-ara-OMe-G(iBu)-3'-CE-Phosphoramidite; 2'-OMe-G(iBu)-ANA-CE-Phosphoramidite; N-[9-[5-O-[Bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-2-O-methyl-β-D-arabinofuranosyl]-6,9-dihydro-6-oxo-1H-purin-2-yl]-2-methylpropanamide; 5'-O-DMTr-2'-ara-OMe-G(iBu)-3'-CE-Phosphoramidite; N2-Isobutyryl-5'-O-(4,4'-dimethoxytrityl)-2'-O-methyl-arabinoguanosine-3'-[(2-cyanoethyl)-(N,N-diisopropropyl)]-Phosphoramidite

ANA 2'-OMe U amidite

Description: ANA 2'-OMe U amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, allowing the incorporation of uridine residues modified with 2'-O-methyl into the oligonucleotide sequence. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00901

CAS: 1239669-77-2

Molecular Formula: C40H49N4O9P

Molecular Weight: 760.83

Purity: >98%

Appearance: Off-white solid

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InChIKey: UVUOJOLPNDCIHL-LYEFJPEKSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCC#N)OC1C(OC(C1OC)N2C=CC(=O)NC2=O)COC(C3=CC=CC=C3)(C4=CC=C(C=C4)OC)C5=CC=C(C=C5)OC

IUPAC Name: 3-[[(2R,3R,4S,5R)-2-[[bis(4-methoxyphenyl)-phenylmethoxy]methyl]-5-(2,4-dioxopyrimidin-1-yl)-4-methoxyoxolan-3-yl]oxy-[di(propan-2-yl)amino]phosphanyl]oxypropanenitrile

InChI: InChI=1S/C40H49N4O9P/c1-27(2)44(28(3)4)54(51-25-11-23-41)53-36-34(52-38(37(36)49-7)43-24-22-35(45)42-39(43)46)26-50-40(29-12-9-8-10-13-29,30-14-18-32(47-5)19-15-30)31-16-20-33(48-6)21-17-31/h8-10,12-22,24,27-28,34,36-38H,11,25-26H2,1-7H3,(H,42,45,46)/t34-,36-,37+,38-,54?/m1/s1

Synonyms: 1-[5-O-[Bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-2-O-methyl-β-D-arabinofuranosyl]-2,4(1H,3H)-pyrimidinedione; 2'-OMe-U-ANA-CE-Phosphoramidite; (2R,3R,4S,5R)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-4-methoxytetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite; 5-O-(4,4'-dimethoxytrityl)-3-O-(diisopropylamino-2-cyanoethoxyphosphanyl)-1-deoxy-2-O-methyl-1-uracil-1-yl-beta-D-arabino-pentofuranose; DMTr-2'-ara-OMe-U-3'-CE-Phosphoramidite; 5'-O-DMTr-2'-ara-OMe-U-3'-CE-Phosphoramidite; 5'-O-(4,4'-dimethoxytrityl)-2'-O-methyl-arabinouridine-3'-[(2-cyanoethyl)-(N,N-diisopropropyl)]-Phosphoramidite

ANA 2'-OMe A(Bz) amidite

Description: ANA 2'-OMe A(Bz) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of adenine residues modified with 2'-O-methyl and protected with benzoyl (Bz) into the oligonucleotide sequence. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00902

CAS: 1239669-70-5

Molecular Formula: C48H54N7O8P

Molecular Weight: 887.98

Purity: >98%

Appearance: Off-white solid

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InChIKey: AZCGOTUYEPXHMJ-VOJYYREFSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCC#N)OC1C(OC(C1OC)N2C=NC3=C(N=CN=C32)NC(=O)C4=CC=CC=C4)COC(C5=CC=CC=C5)(C6=CC=C(C=C6)OC)C7=CC=C(C=C7)OC

IUPAC Name: N-[9-[(2R,3S,4R,5R)-5-[[bis(4-methoxyphenyl)-phenylmethoxy]methyl]-4-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxy-3-methoxyoxolan-2-yl]purin-6-yl]benzamide

InChI: InChI=1S/C48H54N7O8P/c1-32(2)55(33(3)4)64(61-28-14-27-49)63-42-40(62-47(43(42)59-7)54-31-52-41-44(50-30-51-45(41)54)53-46(56)34-15-10-8-11-16-34)29-60-48(35-17-12-9-13-18-35,36-19-23-38(57-5)24-20-36)37-21-25-39(58-6)26-22-37/h8-13,15-26,30-33,40,42-43,47H,14,28-29H2,1-7H3,(H,50,51,53,56)/t40-,42-,43+,47-,64?/m1/s1

Synonyms: DMTr-2'-ara-OMe-A(Bz)-3'-CE-Phosphoramidite; 2'-OMe-A(Bz)-ANA-CE-Phosphoramidite; Benzamide, N-[9-[5-O-[bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-2-O-methyl-β-D-arabinofuranosyl]-9H-purin-6-yl]-; (2R,3R,4S,5R)-5-(6-benzamido-9H-purin-9-yl)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-methoxytetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite; 5'-O-DMTr-2'-ara-OMe-A(Bz)-3'-CE-Phosphoramidite; N6-benzoyl-(5'-O-(4,4'-dimethoxytrityl)-2'-O-methyl-arabinoadenosine-3'-[(2-cyanoethyl)-(N, N-diisopropropyl)]-Phosphoramidite

aTNA A(Bz) amidite

Description: aTNA A(Bz) amidite is a modified phosphoramidite used in oligonucleotide synthesis. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as molecular biology research, diagnostics, and therapeutics.

CAT: BRP-00903

CAS: 1654757-57-9

Molecular Formula: C48H55N8O7P

Molecular Weight: 886.99

Purity: >98%

Appearance: White solid

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InChIKey: IHMRCPNOGYPCLE-BZSGYPRQSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: N#CCCOP(OC(C)C(NC(=O)CN1C=NC=2C(=NC=NC21)NC(=O)C=3C=CC=CC3)COC(C=4C=CC=CC4)(C5=CC=C(OC)C=C5)C6=CC=C(OC)C=C6)N(C(C)C)C(C)C

IUPAC Name: (2R,3R)-3-(2-(6-benzamido-9H-purin-9-yl)acetamido)-4-(bis(4-methoxyphenyl)(phenyl)methoxy)butan-2-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C48H55N8O7P/c1-33(2)56(34(3)4)64(62-28-14-27-49)63-35(5)42(53-43(57)29-55-32-52-44-45(50-31-51-46(44)55)54-47(58)36-15-10-8-11-16-36)30-61-48(37-17-12-9-13-18-37,38-19-23-40(59-6)24-20-38)39-21-25-41(60-7)26-22-39/h8-13,15-26,31-35,42H,14,28-30H2,1-7H3,(H,53,57)(H,50,51,54,58)/t35-,42-,64?/m1/s1

Synonyms: Phosphoramidous acid, N,N-bis(1-methylethyl)-, (1R,2R)-2-[[2-[6-(benzoylamino)-9H-purin-9-yl]acetyl]amino]-3-[bis(4-methoxyphenyl)phenylmethoxy]-1-methylpropyl 2-cyanoethyl ester; (1R,2R)-2-[[2-[6-(Benzoylamino)-9H-purin-9-yl]acetyl]amino]-3-[bis(4-methoxyphenyl)phenylmethoxy]-1-methylpropyl 2-cyanoethyl N,N-bis(1-methylethyl)phosphoramidite

2'-OTBS 5-I-C(Bz) amidite

Description: 2'-OTBS 5-I-C(Bz) amidite is used in the synthesis of oligonucleotides where specific modifications are required for various research or therapeutic applications. The iodine atom at the 5-position allows for further functionalization or labeling, the TBDMS group protects the 2'-hydroxyl during synthesis, and the benzoyl group protects the exocyclic amino group. This reagent is particularly useful in applications that demand modified nucleotides for enhanced properties such as increased stability or specific binding characteristics.

CAT: BRP-00907

CAS: 256493-91-1

Molecular Formula: C52H65IN5O9PSi

Molecular Weight: 1090.08

Purity: >95%

Appearance: Off-white solid

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InChIKey: UVIALSKMICAVNV-ZQRHXHOESA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC(C)N(C(C)C)P(OCCC#N)OC1C(OC(C1O[Si](C)(C)C(C)(C)C)N2C=C(C(=NC2=O)NC(=O)C3=CC=CC=C3)I)COC(C4=CC=CC=C4)(C5=CC=C(C=C5)OC)C6=CC=C(C=C6)OC

IUPAC Name: N-[1-[(2R,3R,4R,5R)-5-[[bis(4-methoxyphenyl)-phenylmethoxy]methyl]-3-[tert-butyl(dimethyl)silyl]oxy-4-[2-cyanoethoxy-[di(propan-2-yl)amino]phosphanyl]oxyoxolan-2-yl]-5-iodo-2-oxopyrimidin-4-yl]benzamide

InChI: InChI=1S/C52H65IN5O9PSi/c1-35(2)58(36(3)4)68(64-32-18-31-54)66-45-44(34-63-52(38-21-16-13-17-22-38,39-23-27-41(61-8)28-24-39)40-25-29-42(62-9)30-26-40)65-49(46(45)67-69(10,11)51(5,6)7)57-33-43(53)47(56-50(57)60)55-48(59)37-19-14-12-15-20-37/h12-17,19-30,33,35-36,44-46,49H,18,32,34H2,1-11H3,(H,55,56,59,60)/t44-,45-,46-,49-,68?/m1/s1

Synonyms: Cytidine, N-benzoyl-5'-O-[bis(4-methoxyphenyl)phenylmethyl]-2'-O-[(1,1-dimethylethyl)dimethylsilyl]-5-iodo-, 3'-[2-cyanoethyl bis(1-methylethyl)phosphoramidite]; (2R,3R,4R,5R)-5-(4-benzamido-5-iodo-2-oxopyrimidin-1(2H)-yl)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-((tert-butyldimethylsilyl)oxy)tetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite; 5-Iodo Cytidine CED phosphoramidite; 5-Iodo 2'-TBDMS C(Bz) 3'-CE phosphoramidite

2'-OMe PseudoIsoCytidine(dmf) amidite

Description: 2'-OMe PseudoIsoCytidine(dmf) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of pseudoisocytidine modified with 2'-O-methyl and protected with dimethylformamidine (dmf) into the oligonucleotide sequence. This compound is essential for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as RNA research, antisense oligonucleotide design, and therapeutics.

CAT: BRP-00908

CAS: 141411-21-4

Molecular Formula: C43H55N6O8P

Molecular Weight: 814.92

Purity: >95%

Appearance: Off-white solid

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InChIKey: SGBFUZIGEGJKFA-SAAFSQBVSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: N#CCCOP(OC1C(OC(C2=CN=C(N=CN(C)C)NC2=O)C1OC)COC(C=3C=CC=CC3)(C4=CC=C(OC)C=C4)C5=CC=C(OC)C=C5)N(C(C)C)C(C)C

IUPAC Name: (2R,3R,4S,5S)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-5-(2-(((dimethylamino)methylene)amino)-6-oxo-1,6-dihydropyrimidin-5-yl)-4-methoxytetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C43H55N6O8P/c1-29(2)49(30(3)4)58(55-25-13-24-44)57-39-37(56-38(40(39)53-9)36-26-45-42(47-41(36)50)46-28-48(5)6)27-54-43(31-14-11-10-12-15-31,32-16-20-34(51-7)21-17-32)33-18-22-35(52-8)23-19-33/h10-12,14-23,26,28-30,37-40H,13,25,27H2,1-9H3,(H,45,47,50)/t37-,38+,39-,40+,58?/m1/s1

Synonyms: Methanimidamide, N'-[5-[5-O-[bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-2-O-methyl-β-D-ribofuranosyl]-1,4-dihydro-4-oxo-2-pyrimidinyl]-N,N-dimethyl-; Phosphoramidous acid, bis(1-methylethyl)-, mono(2-cyanoethyl) ester, ester with N'-[5-[5-O-[bis(4-methoxyphenyl)phenylmethyl]-2-O-methyl-β-D-ribofuranosyl]-1,4-dihydro-4-oxo-2-pyrimidinyl]-N,N-dimethylmethanimidamide

2'-OTBS PseudoIsoCytidine(dmf) amidite

Description: 2'-OTBS PseudoIsoCytidine(dmf) amidite is a modified phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, enabling the incorporation of pseudoisocytidine modified with a tert-butyldimethylsilyl (OTBS) protecting group and protected with dimethylformamidine (dmf) into the oligonucleotide sequence. This compound is crucial for synthesizing oligonucleotides with specific modifications, which can be utilized in various applications such as RNA research, antisense oligonucleotide design, and therapeutics.

CAT: BRP-00909

CAS: 1192344-93-6

Molecular Formula: C48H67N6O8PSi

Molecular Weight: 915.16

Purity: >95%

Appearance: Off-white solid

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InChIKey: LSKHQLXTKWPBJC-LHBYQZGQSA-N

Solubility: Soluble in Acetonitrile, DMF

SMILES: N#CCCOP(OC1C(OC(C2=CN=C(N=CN(C)C)NC2=O)C1O[Si](C)(C)C(C)(C)C)COC(C=3C=CC=CC3)(C4=CC=C(OC)C=C4)C5=CC=C(OC)C=C5)N(C(C)C)C(C)C

IUPAC Name: (2R,3R,4S,5S)-2-((bis(4-methoxyphenyl)(phenyl)methoxy)methyl)-4-((tert-butyldimethylsilyl)oxy)-5-(2-(((dimethylamino)methylene)amino)-6-oxo-1,6-dihydropyrimidin-5-yl)tetrahydrofuran-3-yl (2-cyanoethyl) diisopropylphosphoramidite

InChI: InChI=1S/C48H67N6O8PSi/c1-33(2)54(34(3)4)63(59-29-17-28-49)61-43-41(60-42(44(43)62-64(12,13)47(5,6)7)40-30-50-46(52-45(40)55)51-32-53(8)9)31-58-48(35-18-15-14-16-19-35,36-20-24-38(56-10)25-21-36)37-22-26-39(57-11)27-23-37/h14-16,18-27,30,32-34,41-44H,17,29,31H2,1-13H3,(H,50,52,55)/t41-,42+,43-,44+,63?/m1/s1

Synonyms: Methanimidamide, N'-[5-[5-O-[bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-2-O-[(1,1-dimethylethyl)dimethylsilyl]-β-D-ribofuranosyl]-1,6-dihydro-6-oxo-2-pyrimidinyl]-N,N-dimethyl-; N'-[5-[5-O-[Bis(4-methoxyphenyl)phenylmethyl]-3-O-[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]-2-O-[(1,1-dimethylethyl)dimethylsilyl]-β-D-ribofuranosyl]-1,6-dihydro-6-oxo-2-pyrimidinyl]-N,N-dimethylmethanimidamide

Cyanine 3 amidite (iodide)

Description: Cyanine 3 amidite (iodide) is a fluorescent dye-labeled phosphoramidite used in oligonucleotide synthesis. It serves as a building block during solid-phase oligonucleotide synthesis, allowing the incorporation of Cyanine 3 (Cy3) fluorophore into the oligonucleotide sequence. This compound is widely used in various applications such as fluorescence in situ hybridization (FISH), microarray analysis, and fluorescence-based detection assays in molecular biology and diagnostics due to its strong and stable fluorescence properties.

CAT: BRP-00910

Molecular Formula: C58H70IN4O4P

Molecular Weight: 1045.10

Purity: >95%

Appearance: Dark-purple solid

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InChIKey: GTLRVZNKJSCYOV-UHFFFAOYSA-M

Solubility: Soluble in Acetonitrile, DMF

SMILES: CC1(C)C(C=CC=C2N(CCCOP(OCCC#N)N(C(C)C)C(C)C)C3=C(C=CC=C3)C2(C)C)=[N+](CCCOC(C4=CC=CC=C4)(C5=CC=C(OC)C=C5)C6=CC=CC=C6)C7=C1C=CC=C7.[I-]

IUPAC Name: 2-(3-(1-(3-(((2-cyanoethoxy)(diisopropylamino)phosphaneyl)oxy)propyl)-3,3-dimethylindolin-2-ylidene)prop-1-en-1-yl)-1-(3-((4-methoxyphenyl)diphenylmethoxy)propyl)-3,3-dimethyl-3H-indol-1-ium;iodide

InChI: InChI=1S/C58H70N4O4P.HI/c1-44(2)62(45(3)4)67(65-42-21-38-59)66-43-23-40-61-53-31-19-17-29-51(53)57(7,8)55(61)33-20-32-54-56(5,6)50-28-16-18-30-52(50)60(54)39-22-41-64-58(46-24-12-10-13-25-46,47-26-14-11-15-27-47)48-34-36-49(63-9)37-35-48;/h10-20,24-37,44-45H,21-23,39-43H2,1-9H3;1H/q+1;/p-1

Synonyms: 3H-Indolium, 2-[3-[1-[3-[[[bis(1-methylethyl)amino](2-cyanoethoxy)phosphino]oxy]propyl]-1,3-dihydro-3,3-dimethyl-2H-indol-2-ylidene]-1-propen-1-yl]-1-[3-[(4-methoxyphenyl)diphenylmethoxy]propyl]-3,3-dimethyl-, iodide (1:1); Cyanine 3 amidite

Related CAS: 182873-76-3 (chloride) ; 718594-66-2 (free base)