FAM-xtra™ Phosphoramidite

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Telephone	1-800-990-8053
Fax	1-800-609-2943
Email	sales@aatbio.com
International	See distributors
Bulk request	Inquire
Custom size	Inquire
Shipping	Standard overnight for United States, inquire for international

Physical properties

Molecular weight	879.94
Solvent	MeCN

Spectral properties

Correction Factor (260 nm)	0.32
Correction Factor (280 nm)	0.178
Extinction coefficient (cm ^-1 M ^-1)	83000
Excitation (nm)	493
Emission (nm)	517

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

Overview SDS Protocol

Molecular weight

879.94

Correction Factor (260 nm)

0.32

Correction Factor (280 nm)

0.178

Extinction coefficient (cm ^-1 M ^-1)

83000

Excitation (nm)

493

Emission (nm)

517

There are several ways of labeling an oligonucleotide with fluorescein. 6-FAM phosphoramidite might be the most popular fluorescent building block that is widely used to efficiently label an oligonucleotide at the 5’-end with the fluorescein fluorophore. Standard cleavage and deprotection with ammonium hydroxide are used to liberate the fluorescein-labeled oligos. Although 6-FAM has be ubiquitously used for developing a variety of qPCR probes, its fluorescence suffers two serve limitations: a). highly pH dependent; and b). photo-bleach rapidly. FAM-xtra™ Phosphoramidite has been developed to address these two limitations while the well-beloved operational convenience of 6-FAM phosphoramidite is intactly maintained. FAM-xtra Phosphoramidite can be used exactly as is used for 6-FAM phosphoramidite under the same operation conditions without any changes needed. The oligos made from FAM-xtra Phosphoramidite have quite a few great benefits: a). FAM-xtra-labeled oligos have the identical spectra to those of 6-FAM labeled ones; b). FAM-xtra-labeled oligos are much brighter than the corresponding FAM-labeled ones; c). FAM-xtra-labeled oligos have much higher photostability than the corresponding FAM-labeled ones; and d). The fluorescence of FAM-xtra-labeled oligos is much less pH sensitive than that of the corresponding FAM-labeled ones. Under the physiological conditions, the fluorescence of FAM-xtra-labeled oligos is essentially pH-independent, making the FAM-xtra-labeled oligos much more robust qPCR probes.

Calculators

Common stock solution preparation

Table 1. Volume of MeCN needed to reconstitute specific mass of FAM-xtra™ 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	113.644 µL	568.221 µL	1.136 mL	5.682 mL	11.364 mL
5 mM	22.729 µL	113.644 µL	227.288 µL	1.136 mL	2.273 mL
10 mM	11.364 µL	56.822 µL	113.644 µL	568.221 µL	1.136 mL

Molarity calculator

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

Mass (Calculate)		Molecular weight		Volume (Calculate)		Concentration (Calculate)		Moles
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Spectrum

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Spectral properties

Correction Factor (260 nm)	0.32
Correction Factor (280 nm)	0.178
Extinction coefficient (cm ^-1 M ^-1)	83000
Excitation (nm)	493
Emission (nm)	517

Product Family

Name	Excitation (nm)	Emission (nm)	Extinction coefficient (cm ^-1 M ^-1)	Correction Factor (260 nm)	Correction Factor (280 nm)
FAM-xtra CPG 500A	493	517	83000	0.32	0.178
FAM-xtra CPG 1000A	493	517	83000	0.32	0.178
6-FAM phosphoramidite [5'-Fluorescein phosphoramidite] CAS 204697-37-0	493	517	83000	0.32	0.178

Images

Figure 1. Chemical structure for FAM-xtra™ Phosphoramidite.

References

View all 8 references: Citation Explorer

Development of an Innovative Intradermal siRNA Delivery System Using a Combination of a Functional Stearylated Cytoplasm-Responsive Peptide and a Tight Junction-Opening Peptide.
Authors: Ibaraki, Hisako and Kanazawa, Takanori and Takashima, Yuuki and Okada, Hiroaki and Seta, Yasuo
Journal: Molecules (Basel, Switzerland) (2016)

Non-nucleoside phosphoramidites of xanthene dyes (FAM, JOE, and TAMRA) for oligonucleotide labeling.
Authors: Kvach, Maksim V and Tsybulsky, Dmitry A and Shmanai, Vadim V and Prokhorenko, Igor A and Stepanova, Irina A and Korshun, Vladimir A
Journal: Current protocols in nucleic acid chemistry (2013): Unit 4.55

Practical synthesis of isomerically pure 5- and 6-carboxytetramethylrhodamines, useful dyes for DNA probes.
Authors: Kvach, Maksim V and Stepanova, Irina A and Prokhorenko, Igor A and Stupak, Aleksander P and Bolibrukh, Dmitry A and Korshun, Vladimir A and Shmanai, Vadim V
Journal: Bioconjugate chemistry (2009): 1673-82

Synthesis and cellular uptake of fluorescently labeled multivalent hyaluronan disaccharide conjugates of oligonucleotide phosphorothioates.
Authors: Karskela, Marika and Virta, Pasi and Malinen, Melina and Urtti, Arto and Lönnberg, Harri
Journal: Bioconjugate chemistry (2008): 2549-58

Synthesis of HyBeacons and dual-labelled probes containing 2'-fluorescent groups for use in genetic analysis.
Authors: Dobson, Neil and McDowell, David G and French, David J and Brown, Lynda J and Mellor, John M and Brown, Tom
Journal: Chemical communications (Cambridge, England) (2003): 1234-5

Amplified fragment length polymorphism (AFLP) protocol for genotyping the malarial parasite Plasmodium falciparum.
Authors: Rubio, J M and Berzosa, P J and Benito, A
Journal: Parasitology (2001): 331-6

Recovery of an oligonucleotide using silver ions immobilized onto paramagnetic particles.
Authors: Ramírez-Vick, J E and García, A A and Lee, J
Journal: Preparative biochemistry & biotechnology (1998): 243-60

Fluorescent dye phosphoramidite labelling of oligonucleotides.
Authors: Theisen, P and McCollum, C and Andrus, A
Journal: Nucleic acids symposium series (1992): 99-100