6-JOE Phosphoramidite

There are several ways of labeling an oligonucleotide with fluorescein. The choice of label is diversified further, depending on the spectral requirements. 5'-fluorescein-CE phosphoramidite, derived from the single isomer 6-FAM, 6-HEX, 6-TET and 6-JOE, can all be used to efficiently label an oligonucleotide at the 5'-end. Labeling the 3'-end of an oligo with fluorescein can be achieved using 3'-Fluorescein CPGs. Standard cleavage and deprotection with ammonium hydroxide liberates the fluorescein-labeled oligo when using any of these supports. AAT Bioquest offers 6-FAM, 6-HEX, 6-TET and 6-JOE phosphoramidites for effectively labeling oligos. AAT Bioquest offers 6-JOE Phosphoramidite to facilitate the labeling of oligos with JOE. Helix Fluor™ 6-JOE Phosphoramidite can be conveniently used to prepare the oligos that have essentially identical spectral and biological properties to the ones that are derived from 6-JOE, SE.

Protocol

COA

Catalog	Size	Price
6047	100 umoles	Price
6048	1 g	Price
6049	50 umoles	Price

Calculators

Common stock solution preparation

Table 1. Volume of MeCN needed to reconstitute specific mass of 6-JOE Phosphoramidite to given concentration. Note that volume is only for preparing stock solution. Refer to sample experimental protocol for appropriate experimental/physiological buffers.

	0.1 mg	0.5 mg	1 mg	5 mg	10 mg
1 mM	102.787 µL	513.933 µL	1.028 mL	5.139 mL	10.279 mL
5 mM	20.557 µL	102.787 µL	205.573 µL	1.028 mL	2.056 mL
10 mM	10.279 µL	51.393 µL	102.787 µL	513.933 µL	1.028 mL

Molarity calculator

Enter any two values (mass, volume, concentration) to calculate the third.

Mass (Calculate)		Molecular weight		Volume (Calculate)		Concentration (Calculate)		Moles
mg	÷	972.89 g/mol	=	mL	x	mM	=	mmol

References

View all 13 references: Citation Explorer

Sequence-specific, self-reporting hairpin inversion probes

Authors:

Browne KA., undefined

Journal:

J Am Chem Soc (2005): 1989

Modified oligonucleotides containing lithocholic acid in their backbones: their enhanced cellular uptake and their mimicking of hairpin structures

Authors:

Kim SJ, Bang EK, Kwon HJ, Shim JS, Kim BH.

Journal:

Chembiochem (2004): 1517

Synthesis of HyBeacons and dual-labelled probes containing 2'-fluorescent groups for use in genetic analysis

Authors:

Dobson N, McDowell DG, French DJ, Brown LJ, Mellor JM, Brown T.

Journal:

Chem Commun (Camb) (2003): 1234

Reduced aggregation and improved specificity of G-rich oligodeoxyribonucleotides containing pyrazolo[3,4-d]pyrimidine guanine bases

Authors:

Kutyavin IV, Lokhov SG, Afonina IA, Dempcy R, Gall AA, Gorn VV, Lukhtanov E, Metcalf M, Mills A, Reed MW, S and ers S, Shishkina I, Vermeulen NM.

Journal:

Nucleic Acids Res (2002): 4952

Diels--Alder bioconjugation of diene-modified oligonucleotides

Authors:

Hill KW, Taunton-Rigby J, Carter JD, Kropp E, Vagle K, Pieken W, McGee DP, Husar GM, Leuck M, Anziano DJ, Sebesta DP.

Journal:

J Org Chem (2001): 5352

Physical properties

Molecular weight	972.89
Solvent	MeCN

Spectral properties

Extinction coefficient (cm ^-1 M ^-1)	75000 ¹
Excitation (nm)	520
Emission (nm)	545

Storage, safety and handling

H-phrase	H303, H313, H333
Hazard symbol	XN
Intended use	Research Use Only (RUO)
R-phrase	R20, R21, R22
Storage	Freeze (< -15 °C); Minimize light exposure
UNSPSC	12171501

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Page updated on July 26, 2023