| Size | Price | Stock | Qty |
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| 5g |
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| 10g |
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| Other Sizes |
| Targets |
Xylene Cyanol FF does not target a specific protein or enzyme. As a tracking dye, its utility in electrophoresis is based on its physical properties, including its electrophoretic mobility and visibility. The compound migrates through gels at a predictable rate, allowing researchers to monitor the progress of electrophoresis runs.
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| ln Vitro |
In various polyacrylamide gel electrophoresis methods, Xylene Cyanol FF can trace DNA. The following is the operation [1]: 1. applied when denaturing gel. (1) To make the gel, combine 8.3 M urea with 10% acrylamide (19:1, acrylamide:bisacrylamide). 55°C is the usage temperature. Prepare the electrophoresis buffer (TBE) by mixing 89 mM Tris, HCl, pH 8.0, 89 mM boric acid, and 2 mM EDTA. (3) Ready the loading buffer: 0.1% Xylene Cyanol FF, 1 mM EDTA, and 10 mM NaOH. (4) The gel was run at 60 °C (31 V/cm, constant voltage) on a Hoefer SE 600 electrophoresis device or at 70 W (50 V/cm, constant power) on an IBI model STS 45 electrophoresis device. (5) Apply X-ray film to the gel after it has dried on Whatman 3MM paper. Up to 15 hours of exposure are allowed. 2. applied when denaturing gels. Gel should be prepared with 8% acrylamide (19:1, acrylamide:bisacrylamide). Prepare the DNA suspension by adding 12.5 mM magnesium acetate (TAEMg), 20 mM acetic acid, 2 mM EDTA, 40 mM Tris²HCl, pH 8.0, and these ingredients. Bring the suspension of DNA to a boil and then gradually let it cool down to 16 °C. Create a staining solution by mixing 50% glycerol, 0.02% bromophenol blue, 0.02% Xylene Cyanol FF, and TAEMg. Use this solution to dilute the sample until it reaches a final volume of 10 µL. (5) The gel was electrophoresed at 11 V/cm at 16 °C using a Hoefer SE-600 gel electrophoresis apparatus. It was then exposed to X-ray film for a maximum of 15 hours or stained with Stainsall dye.
The in vitro activity of Xylene Cyanol FF is its function as a tracking dye for nucleic acid electrophoresis. The compound has a characteristic green to blue-green color and migrates through agarose and polyacrylamide gels at a known rate, allowing researchers to monitor the progress of electrophoresis runs. Xylene Cyanol FF is used as a loading dye in DNA sequencing and other electrophoresis applications. |
| ln Vivo |
Xylene Cyanol FF is not used as a therapeutic agent. Its in vivo utility is limited to research applications as a tracking dye for electrophoresis. The compound is not intended for systemic therapeutic use.
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| Enzyme Assay |
In vitro binding assays are not applicable for Xylene Cyanol FF as it functions as a tracking dye rather than a drug targeting specific enzymes or receptors. The compound is used in electrophoresis applications where it is mixed with nucleic acid samples and loaded onto gels.
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| Cell Assay |
For in vitro cellular experiments, Xylene Cyanol FF is not typically used in cell-based assays. The compound is primarily used as a reagent for nucleic acid electrophoresis.
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| Animal Protocol |
In vivo animal experiments with Xylene Cyanol FF are not typically performed, as the compound is primarily used as an in vitro electrophoresis reagent. The compound is intended for research use only.
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| ADME/Pharmacokinetics |
Pharmacokinetic properties of Xylene Cyanol FF have not been characterized, as the compound is a research-use tracking dye rather than a drug candidate. The compound has a molecular weight of 538.6-538.61 g/mol and is soluble in water and slightly soluble in DMSO and methanol. It should be stored at 2-8°C, sealed, and away from moisture.
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| Toxicity/Toxicokinetics |
Xylene Cyanol FF is irritating to the eyes, respiratory system, and skin. The compound is intended for research applications only and not for therapeutic use. Standard laboratory safety precautions should be observed when handling this chemical reagent.
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| References |
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| Additional Infomation |
Xylene Cyanol FF (Acid Blue 147) is an acid triphenylmethane dye used as a tracking dye for nucleic acid electrophoresis. It is used in polyacrylamide and agarose gel electrophoresis for DNA sequencing and for histochemical staining. The compound has no clinical or therapeutic applications.
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| Molecular Formula |
C25H27N2NAO6S2
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|---|---|
| Molecular Weight |
538.61
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| Exact Mass |
538.12
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| CAS # |
2650-17-1
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| PubChem CID |
23687514
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| Appearance |
Dark green to black solid powder
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| Melting Point |
295°C
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| LogP |
6.591
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| Hydrogen Bond Donor Count |
2
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| Hydrogen Bond Acceptor Count |
8
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| Rotatable Bond Count |
7
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| Heavy Atom Count |
36
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| Complexity |
1120
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| Defined Atom Stereocenter Count |
0
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| SMILES |
CCNC1=C(C=C(C=C1)/C(=C/2\C=CC(=NCC)C(=C2)C)/C3=C(C=C(C=C3)S(=O)(=O)[O-])S(=O)(=O)O)C.[Na+]
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| InChi Key |
VVLFAAMTGMGYBS-VARVZIDFSA-M
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| InChi Code |
InChI=1S/C25H28N2O6S2.Na/c1-5-26-22-11-7-18(13-16(22)3)25(19-8-12-23(27-6-2)17(4)14-19)21-10-9-20(34(28,29)30)15-24(21)35(31,32)33;/h7-15,26H,5-6H2,1-4H3,(H,28,29,30)(H,31,32,33);/q;+1/p-1/b25-19-,27-23?;
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| Chemical Name |
sodium;4-[(Z)-[4-(ethylamino)-3-methylphenyl]-(4-ethylimino-3-methylcyclohexa-2,5-dien-1-ylidene)methyl]-3-sulfobenzenesulfonate
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| HS Tariff Code |
2934.99.9001
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| Storage |
Powder -20°C 3 years 4°C 2 years In solvent -80°C 6 months -20°C 1 month Note: Please store this product in a sealed and protected environment (e.g. under nitrogen), avoid exposure to moisture and light. |
| Shipping Condition |
Room temperature (This product is stable at ambient temperature for a few days during ordinary shipping and time spent in Customs)
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| Solubility (In Vitro) |
May dissolve in DMSO (in most cases), if not, try other solvents such as H2O, Ethanol, or DMF with a minute amount of products to avoid loss of samples
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| Solubility (In Vivo) |
Note: Listed below are some common formulations that may be used to formulate products with low water solubility (e.g. < 1 mg/mL), you may test these formulations using a minute amount of products to avoid loss of samples.
Injection Formulations
Injection Formulation 1: DMSO : Tween 80： Saline = 10 : 5 : 85 (i.e. 100 μL DMSO stock solution → 50 μL Tween 80 → 850 μL Saline)(e.g. IP/IV/IM/SC) *Preparation of saline: Dissolve 0.9 g of sodium chloride in 100 mL ddH ₂ O to obtain a clear solution. Injection Formulation 2: DMSO : PEG300 ：Tween 80 : Saline = 10 : 40 : 5 : 45 (i.e. 100 μL DMSO → 400 μLPEG300 → 50 μL Tween 80 → 450 μL Saline) Injection Formulation 3: DMSO : Corn oil = 10 : 90 (i.e. 100 μL DMSO → 900 μL Corn oil) Example: Take the Injection Formulation 3 (DMSO : Corn oil = 10 : 90) as an example, if 1 mL of 2.5 mg/mL working solution is to be prepared, you can take 100 μL 25 mg/mL DMSO stock solution and add to 900 μL corn oil, mix well to obtain a clear or suspension solution (2.5 mg/mL, ready for use in animals). View More
Injection Formulation 4: DMSO : 20% SBE-β-CD in saline = 10 : 90 [i.e. 100 μL DMSO → 900 μL (20% SBE-β-CD in saline)] Oral Formulations
Oral Formulation 1: Suspend in 0.5% CMC Na (carboxymethylcellulose sodium) Oral Formulation 2: Suspend in 0.5% Carboxymethyl cellulose Example: Take the Oral Formulation 1 (Suspend in 0.5% CMC Na) as an example, if 100 mL of 2.5 mg/mL working solution is to be prepared, you can first prepare 0.5% CMC Na solution by measuring 0.5 g CMC Na and dissolve it in 100 mL ddH2O to obtain a clear solution; then add 250 mg of the product to 100 mL 0.5% CMC Na solution, to make the suspension solution (2.5 mg/mL, ready for use in animals). View More
Oral Formulation 3: Dissolved in PEG400 (Please use freshly prepared in vivo formulations for optimal results.) |
| Preparing Stock Solutions | 1 mg | 5 mg | 10 mg | |
| 1 mM | 1.8566 mL | 9.2832 mL | 18.5663 mL | |
| 5 mM | 0.3713 mL | 1.8566 mL | 3.7133 mL | |
| 10 mM | 0.1857 mL | 0.9283 mL | 1.8566 mL |
*Note: Please select an appropriate solvent for the preparation of stock solution based on your experiment needs. For most products, DMSO can be used for preparing stock solutions (e.g. 5 mM, 10 mM, or 20 mM concentration); some products with high aqueous solubility may be dissolved in water directly. Solubility information is available at the above Solubility Data section. Once the stock solution is prepared, aliquot it to routine usage volumes and store at -20°C or -80°C. Avoid repeated freeze and thaw cycles.
Calculation results
Working concentration： mg/mL；
Method for preparing DMSO stock solution： mg drug pre-dissolved in μL DMSO (stock solution concentration mg/mL). Please contact us first if the concentration exceeds the DMSO solubility of the batch of drug.
Method for preparing in vivo formulation:：Take μL DMSO stock solution, next add μL PEG300, mix and clarify, next addμL Tween 80, mix and clarify, next add μL ddH2O，mix and clarify.
(1) Please be sure that the solution is clear before the addition of next solvent. Dissolution methods like vortex, ultrasound or warming and heat may be used to aid dissolving.
(2) Be sure to add the solvent(s) in order.
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