Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester
- Product Name
- Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester
- CAS No.
- 1360547-55-2
- Chemical Name
- Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester
- Synonyms
- Hex-C6-amidite;5'-HEX phosphoramidite;6-HEX CE Phosphoramidite;Hexachlorofluorescein phosphoramidite;6-Hexachlor-fluorescein-phosphoramidit;5'-Hexachlorofluorescein phosphoramidite;6-Hexachloro-Fluorescein Phosphoramidite configured for ABI;2',4,4',5',7,7'-hexachloro-6-((6-(((2-cyanoethoxy)(diisopropyl amino)phosphanyl)oxy)hexyl)carbamoyl)-3-oxo-3H-spiro [isobenzofuran-1,9'-xanthene]-3',6'-diyl bis(2,2-dimethyl propanoate);Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester
- CBNumber
- CB28135113
- Molecular Formula
- C46H52Cl6N3O10P
- Formula Weight
- 1050.61
- MOL File
- 1360547-55-2.mol
Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester Property
- Boiling point:
- 928.7±65.0 °C(Predicted)
- storage temp.
- -20°C
- solubility
- Good solubility in acetonitrile and DCM
- pka
- 12.74±0.20(Predicted)
- color
- white to off-whitepowder
- Appearance
- off white solid
Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester Chemical Properties,Usage,Production
Description
HEX phosphoramidite for oligonucleotide synthesis, pure 6-isomer.
HEX (hexachlorofluorescein) is a fluorescein derivative with emission in the yellow spectrum range (absorption maximum at 533 nm, emission maximum at 549 nm).
HEX phosphoramidite is used for synthesis of fluorescent-labeled primers and hybridization probes such as TaqMan, Molecular Beacon, and Scorpion for qPCR. HEX is most effectively quenched by non-fluorescent DusQ 1 dark quencher because of significant overlapping of their spectra (convenient for use with DusQ 1 CPG 500 solid support with a pore size of 500 Å). Many automated sequencers based on capillary gel electrophoresis have a detection channel for HEX. Therefore, this phosphoramidite is commonly used for synthesis of 5’-labeled oligonucleotides for fragment analysis, particularly for microsatellite analysis, when microsatellite loci are amplified using a fluorescent-labeled forward primer and a non-labeled reverse primer.
Coupling: 3 min.
Deprotection: standard conditions using 25% ammonium; 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 concentrated aqueous ammonium/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).
Uses
6-Hexachloro-fluorescein phosphoramidite is a fluorescent probe that can be used for oligonucleotide labeling[1].
References
[1] Lee HB, et al. Allele-Specific Quantitative PCR for Accurate, Rapid, and Cost-Effective Genotyping. Hum Gene Ther. 2016 Jun;27(6):425-35. DOI:10.1089/hum.2016.011
Abs/Em Maxima
533/549 nm
Fluoresene quantum yield
0.57
Extinction Coefficient
87770
CF260
0.3
CF280
0.13
Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester Preparation Products And Raw materials
Raw materials
Preparation Products
Propanoic acid, 2,2-dimethyl-, 1,1'-[6-[10-[bis(1-methylethyl)amino]-13-cyano-1-oxo-9,11-dioxa-2-aza-10-phosphatridec-1-yl]-2',4,4',5',7,7'-hexachloro-3-oxospiro[isobenzofuran-1(3H),9'-[9H]xanthene]-3',6'-diyl] ester Suppliers
- Tel
- 021-68781987 13818305065
- sales@energybiopharma.com
- Country
- China
- ProdList
- 652
- Advantage
- 58
- Tel
- 010-62651721 18610486005
- Fax
- 01062651521-808
- minghui.yu@okeanos.com.cn
- Country
- China
- ProdList
- 495
- Advantage
- 60
- Tel
- 0755-23251735 13302967066
- sales@geneseqtools.com
- Country
- China
- ProdList
- 1420
- Advantage
- 58
- Tel
- +8615866703830
- figo.gao@foxmail.com
- Country
- China
- ProdList
- 8497
- Advantage
- 58
- Tel
- +1-631-485-4226
- Fax
- 1-631-614-7828
- inquiry@bocsci.com
- Country
- United States
- ProdList
- 19552
- Advantage
- 58
- Tel
- 021-58432009 400-005-6266
- Fax
- 021-58436166
- marketing1@energy-chemical.com
- Country
- China
- ProdList
- 44894
- Advantage
- 58
- Tel
- 15852554546
- starre@syngenebio.com
- Country
- China
- ProdList
- 901
- Advantage
- 58
- Tel
- 0731-85561037 15386497078
- yunbang@yunbangapi.com
- Country
- China
- ProdList
- 4809
- Advantage
- 58
- Tel
- 18351873721
- helen.zhang@synzest.com
- Country
- China
- ProdList
- 8295
- Advantage
- 58
- Tel
- 13335632219
- 3152731197@qq.com
- Country
- China
- ProdList
- 351
- Advantage
- 58