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Full Catalog (page 14)
Product Number Product Name Molecular Formula Cas. No.

FL 1620

Fluorous propanol CEP

C20H24F17N2O2P 

1036029-24-9 

Description

The simple fluorous phosphoramidite Fluorous propanol CEP does not have a DMT group and is installed permanently at the 5'-terminus of an oligonucleotide. This reagent serves two purposes: (1) it is a simple way to install a permanent fluorous tag, which may be useful for many purposes including immobilization of the oligonucleotide onto a fluorous glass slide, increasing the hydrophobicity of an oligonucleotide, and or as a mass tag; and (2) this phosphoramidite may be used in the capping steps of oligonucleotide synthesis. When used in the capping steps of oligonucleotide synthesis, the full-length oligonucleotide does not have a fluorous tag incorporated. The failure sequences, however, are capped with a fluorous handle and can easily be removed by capture on fluorous or RP media since fluorous-tagged oligonucleotides are retained strongly on fluorous or RP-HPLC adsorbents, more so than molecules that bear dyes or normal DMT groups.

For more information, download a Product Information sheet.

Learn about fluorous affinity purification of oligonucleotides here. Download a brief overview here.

Notes

A fluorous phosphoramidite that is installed permanently at the 5'-terminus of an oligonucleotide.

FL 1700

FDMT-5'-Fluorescein CEP

C77H79F17N3O14P 

1159976-41-6 

Description

The highly hydrophobic FDMT group dominates the adsorptive properties of the molecules, allowing separation from non-FDMT-bearing materials using HPLC (fluorous or RP) or cartridge-based methods (FluoroPak or RP columns). The FDMT group can be removed using the same methods that are used with DMT groups, and on-column detritylation may be employed.

For more information, download a Product Information sheet.

Learn about fluorous affinity purification of oligonucleotides here.

Download a brief overview here.

Notes

Useful for the installation of fluorescein as well as a fluorous tag for greater affinity for a hydrophobic adsorbent improving purification.

FL 1710

Fluorous 5'-fluorescein CEP

C53H55F17N3O10P 

1026807-03-3 

Description

Dyes such as fluorescein are often introduced into oligonucleotides using a non-DMT-bearing phosphoramidite such as 5'-Fluorescein CEP ("6-FAM", BA 0054), which places a 6-carboxyfluorescein residue at the 5'-terminus and does not allow further extension. We now offer Fluorous 5'-fluorescein CEP ("Fluorous 6-FAM", FL 1710), where a permanently-attached fluorous tail is present, allowing the isolation of all oligonucleotides that bear a fluorescein moiety using fluorous or reversed-phase adsorbents. The fluorous tail may also enhance contact quenching with hydrophobic quenchers, especially those that have fluorous tails.

For more information, download a Product Information sheet.

Learn about fluorous affinity purification of oligonucleotides here. Download a brief overview here.

Notes

Useful for the introduction of fluorescein and a permanently-attached fluorous tail which allows the isolation of all oligonucleotides that bear the fluorescein moiety.

FL 1800

Fluorous 3'-dabcyl CPG

N/A 

N/A 

Description

Quenchers of fluorescence are often installed into an oligonucleotide probe using 3'-Dabcyl CPG. We now offer Fluorous 3'-dabcyl CPG, which bears a permanent fluorous tail, rendering all quencher-labeled oligonucleotides highly hydrophobic. The fluorous group dominates the adsorption characteristics of the oligonucleotide, causing it to be highly retained on RP and fluorous adsorbents. Whereas a probe bearing a normal 3'-dabcyl and a DMT-bearing 5'-(6-FAM) (from Fluorescein II CEP, BA 0253) was not well separated from dabcyl-only and FAM-only materials, the same probe bearing a fluorous 3'-dabcyl (from Fluorous 3'-dabcyl CPG, FL 1800) and a DMT-bearing 5'-(6-FAM) was well separated from non-fluorous materials. Oligos bearing only a fluorous dabcyl (but no fluorescein) were also strongly retained. Thus, with a 3'-fluorous dabcyl-labeled oligonucleotide, all highly-retained oligos bear dabcyls and are thus dark; i.e., oligos bearing only a fluorophore are easily separated.

Learn about fluorous affinity purification of oligonucleotides here. Download a brief overview here.

Notes

Fluorous 3'-Dabcyl CPG, which bears a permanent fluorous tail, renders all quencher-labeled oligonucleotides highly hydrophobic.

FP 7210

Fluoro-Pak™ Columns

N/A 

N/A 

Description

Fluoro-PakTM Columns: Each column contains 75 mg of adsorbent, and may be used for up to 0.2 micromole purifications.

For more information on fluorous purification, see this link. Download a brief overview (pdf) of fluorous affinity purification here. Please note: Fluoro-Pak™ columns are designed to be used with fluorous-tagged oligonucleotides but are also useful for normal DMT-on purifications.

Notes

Used for the fluorous affinity purification of oligonucleotides.

FP 7220

Fluoro-Pak™ II Columns

N/A 

N/A 

Description

Fluoro-PakTM II Columns: Each column contains 150 mg of adsorbent, and may be used for up to 1 micromole purifications.

Learn more about fluorous affinity purification of oligonucleotides here. Download a brief overview (pdf) here. Please note: Fluoro-Pak™ columns are designed to be used with fluorous-tagged oligonucleotides but are also useful for normal DMT-on purifications.

Notes

Used for the fluorous affinity purification of oligonucleotides.

FT 6200

5-Carboxytetramethylrhodamine

C25H22N2O5 

91809-66-4 or 150322-05-7 

Alternate Name(s):

5-Carboxy TAMRA

FT 6210

6-Carboxytetramethylrhodamine

C25H22N2O5 

91809-67-5 or 150322-06-8 

Alternate Name(s):

6-Carboxy TAMRA

FT 6220

5-Carboxytetramethylrhodamine N-
Hydroxysuccinimide Ester

C29H25N3O7 

150810-68-7 or 321862-17-3 

Alternate Name(s):

5-Carboxy TAMRA N-hydroxysuccinimide ester

FT 6230

6-Carboxytetramethylrhodamine N-
Hydroxysuccinimide Ester

C29H25N3O7 

150810-69-8 

Alternate Name(s):

6-Carboxy TAMRA N-hydroxysuccinimide ester

FT 6240

6-Carboxy-TAMRA TEG azide

C33H38N6O7 

None Assigned 

HC 9000

N2-Acetyl-O6-
(diphenylcarbamoyl)guanine

C20H16N6O3 

112233-74-6 

Description

Vorbruggen glycosylation of this heterocycle with an appropriate carbohydrate yields predominately the N-9 nucleoside. The diphenylcarbamoyl group directs N-9 glycosylation, and is readily removed with ammonia in MeOH.

Notes

This heterocycle can be used for formation of the N-9 nucleoside.

HC 9010

2-Amino-4-chloropyrrolo[2,3-d]
pyrimidine

C6H5ClN4 

84955-31-7 

HC 9012

6-Amino-4-methoxy-1H-
pyrazolo[3,4-d]pyrimidine

C6H7N5O 

100644-67-5 

HC 9015

4-Aminopyrrolo[2,3-d]
pyrimidine

C6H6N4 

1500-85-2 

Alternate Name(s):

7-Deazaadenine

HC 9020

4-Chloropyrrolo[2,3-d]
pyrimidine

C6H4ClN3 

3680-69-1 

Alternate Name(s):

6-Chloro-7-deazapurine

HC 9030

7-Deazaguanine

C6H6N4O 

7355-55-7 

HC 9040

7-Deazahypoxanthine

C6H5N3O 

3680-71-5 

HC 9042

2,6-Dichloropurine

C5H2N4Cl2 

5451-40-1 

HC 9045

7,9-Dimethylguanine

C7H9N5O 

524-35-6 

HC 9050

5-(2-Hydroxyethyl)uracil

C6H8N2O3 

23956-12-9 

HC 9060

6-Methyl-3,7-dihydro-2H-
pyrrolo[2,3-d]pyrimidin-2-
one

C7H7N3O 

663597-69-1 

Description

This heterocycle is a fluorescent analog of cytosine. It is encountered in several of our other products, Pyrrolo-dC (PYA 11090), Pyrrolo-C (PYA 11092), and the phosphoramidites Pyrrolo-dC CEP (BA 0170) and 2'-O-TBS-Pyrrolo-C CEP (BA 0245).

For a leading reference, please see Berry, et. Al, Tetrahedron Lett. 2004, 45 (11), 2457-2461. The phosphoramidites are also available through Glen Research, our development partners in this project. For photophysical studies on these fluorescent pyrrolopyrimidines, see: Thompson, K. C.; Miyake, N., J. Phys. Chem. B, 2005, 109, 6012-6019.


Notes

HC 9060 is a fluorescent analog of cytosine useful in the formation of nucleobases for probing structure and dynamics of nucleic acids.

HC 9070

7-O-Amino-4-
methylumbelliferone

C10H9NO3 

99908-11-9 

Description

Coumarin derivatives such as 7-O-Amino-4-methylumbelliferone have been shown to be useful in a simple spectroscopic assay for aldehydes in biologically relevant media.1 Condensation of this compound with aldehydes (e.g., formaldehyde) forms aldimines that are susceptible to elimination with Lewis bases such as bovine serum albumin (BSA), forming blue-fluorescent 4-methylumbelliferone (4-MU). The excitation and emission maxima for 4-MU are the same at pH 7.0 (water) and pH 10.3 (0.15 M glycine buffer).2 Maximum fluorescence was observed at 445 nm when excited at 365 nm, and the fluorescence intensity is 100 times as intense at pH 10.3 than at pH 7.0.

5 mg = 26.2 micromoles; 25 mg = 131 micromoles.

Download a Product Information Sheet for HC 9070 here.

1. Salahuddin, S.; Renaudet, O.; Reymond, J.-L. Org. Biomol. Chem. 2004, 2, 1471-1475.

2. Strachan, R.; Wood, J.; Hirschmann, R. J. Org. Chem. 1962, 27, 1074-1075.

Notes

Useful in a simple spectroscopic assay for aldehydes in biologically relevant media.

Alternate Name(s):

7-(Aminooxy)-4-methyl-2H-chromen-2-one

HC 9080

MMBC

C20H13NO7 

137350-66-4 

Description

There are several reagents available for the detection and determination of thiols by labeling with a fluorescent reagent.1 MMBC (Methyl maleimidobenzochromenecarboxylate, also known as ThioGlo® 1) was developed by Yang and Langmuir for the detection of thiols.2,3 The maleimide moiety is susceptible to conjugate addition by thiols, converting MMBC, which is essentially nonfluorescent, into highly fluorescent adducts. The advantages of MMBC include: (1) MMBC reacts quickly (ca. 1 min) with thiols under neutral conditions (pH 7.0-7.4). (2) The fluorescent thiol adducts of MMBC have emission maxima at relatively long wavelengths (513 nm), exhibiting high quantum yields. (3) MMBC itself exhibits very little fluorescence at this wavelength (ca. 40-60 times less fluorescent), thus obviating the separation of unreacted starting material from the mixture. (4) MMBC is relatively resistant to hydrolysis at neutral pH. Higher pH's should be avoided (e.g., = 8.0) due to maleimide hydrolysis and nonspecific reactions with amine residues.1

For more information, download a Product Information Sheet for MMBC here.

1. Review: Tyagarajan, K.; Pretzer, E.; Wiktorowicz, J. E. Electrophoresis, 2003, 24, 2348-2358. (Link)

2. Yang, J.-R.; Langmuir, M. E., J. Heterocyclic Chem. 1991, 28, 1177-1180.

3. ThioGlo is a registered trademark of Covalent Associates, Inc.

Notes

Useful in the detection and determination of thiol-containing proteins, enzymes, and peptides. MMBC, which is essentially nonfluorescent, reacts rapidly with thiols at neutral pH to afford highly fluorescent adducts.

Alternate Name(s):

ThioGlo®1; Methyl 10-(2,5-Dioxo-2,5-dihydro-1H-pyrrol-1-yl)-9-methoxy-3-oxo-3H-benzo[f]chromene-2-carboxylate

HC 9090

Pyrroloquinoline quinone (PQQ)

C14H6N2O8 

72909-34-3 

Notes

Coenzyme tailored for efficient oxidation of methanol and formaldehyde in methylotrophic bacteria.

Alternate Name(s):

Methoxatin

4,5-dioxo-4,5-dihydro-1H-pyrrolo[2,3-f]quinoline-2,7,9-tricarboxylic acid

HC 9095

Luminol synthon N-
hydroxysuccinimide ester

C18H19N3O6 

1111822-73-1 

Description

Luminol is one of the most widely used chemiluminescent substrates, and luminol based indirect bioassays are linear and efficient. 3-Aminophthalimide derivatives are considered to be “pro-chemiluminescent” substrates since treatment with hydrazine forms a primary amine and free luminol.1 These derivatives are also highly fluorescent and can be used for dual fluorescence and chemiluminescence studies. Our Luminol synthon NHS ester (HC 9095) is designed for post synthetic modification of an oligonucleotide which can then be used as a fluorescent tagged oligo, or treated with hydrazine for chemiluminescence studies.

1. Mavri-Damelin, D.; Wilden, J.; Mani, A.-R.; Selden, C.; Hodgson, H.J.F.; Damelin, L.H. Bioconjugate Chem. 2009, 20, 266-273.

Notes

Luminol precursor

Alternate Name(s):

4-Amino-2-(hexanoic acid-N-hydroxysuccinimide ester)-isoindol-1,3-dione

API-NHS ester



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