JOE phosphoramidite, 6-isomer

JOE Oligonucleotide synthesis Phosphoramidites

Cat. #	Quantity	Price	Lead time
12160 / Easily soluble lyophilised form in 8 mL septum	100 mg	$110	in stock
D2160 / Easily soluble lyophilised form in 8 mL septum	250 mg	$165	in stock
F2160 / Easily soluble lyophilised form in 30 mL septum	1 g	$575	in stock
G2160	5 g	$2230	in stock
H2160	10 g	$4180	in stock
K2160	20 g	please inquire	in stock

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JOE phosphoramidite for oligonucleotide synthesis, pure 6-isomer (6-JOE).

Fluorescent dye JOE is a fluorescein derivative containing two chlorine atoms and two methoxy groups. Its absorption and emission maxima are at 533 nm and 554 nm, respectively. By its spectral characteristics JOE is found in between FAM and TAMRA/ROX; therefore, this fluorophor is commonly used for multiplex detection, including that during DNA sequencing.

Our catalog also contains JOE phosphoramidite, 5-isomer. We compared qPCR probes containing different JOE isomers (5-JOE and 6-JOE) and did not find any significant differences between them.

Usage

Coupling: 6 minutes

Deprotection: standard conditions using ammonium hydroxide; deprotection time depends on oligonucleotide composition and nucleobase protecting groups (deprotection for 17 h at 55 °С removes all protecting groups from standard nucleobases). AMA (solution of 30% ammonium hydroxide/40% aqueous methylamine 1:1 v/v) can be used with ~5% of non-fluorescent side product forming. To avoid formation of the side product, start deprotection with ammonium hydroxide (30 min at room temperature), then add an equal volume of 40% aqueous methylamine and continue deprotection as required with AMA (e.g. 10 min at 65 °C).

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Absorption and emission spectra of JOE

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Indocyanine Green (ICG)

Water-soluble and pH-insensitive fluorescent dye widely used in imaging and flow cytometry.

VIC phosphoramidite, 6-isomer

VIC is an asymmetrical xanthene dye with spectral properties similar to HEX and JOE. Useful as a label for qPCR probes.

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General properties

Appearance:	white solid
Molecular weight:	972.88
Molecular formula:	C₄₈H₆₀N₃Cl₂O₁₂P
Solubility:	Good solubility in acetonitrile and DCM
Quality control:	NMR ¹H and ³¹P, HPLC-MS
Storage conditions:	Storage: 12 months after receival at -20°C in the dark. Transportation: at room temperature for up to 3 weeks. Avoid prolonged exposure to light. Desiccate.
MSDS:	Download
	Product specifications

Spectral properties

Excitation/absorption maximum, nm:	533
ε, L⋅mol⁻¹⋅cm⁻¹:	75000
Emission maximum, nm:	554
Fluorescence quantum yield:	0.61
CF₂₆₀:	0.36
CF₂₈₀:	0.28

Oligo synthesis details

Diluent:

acetonitrile

This Product is offered and sold for research purposes only. It has not been tested for safety and efficacy in food, drug, medical device, cosmetic, commercial or any other use. Supply does not express or imply authorization to use for any other purpose, including, without limitation, in vitro diagnostic purposes, in the manufacture of food or pharmaceutical products, in medical devices or in cosmetic products.