Clarity LC Columns
Purification and characterization of synthetic oligonucleotides
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Clarity HPLC/PREP Columns
Each product in Clarity BioSolutions portfolio has been designed to efficiently and effectively purify or characterize synthetic oligonucleotides used in biological research, therapeutic development and biochemical manufacturing.Features of Clarity HPLC Columns for Oligonucleotides
| Separation technique | Reversed Phase (RP) |
|---|---|
| Application | Biological Analysis |
| Pore size | 100 Å |
| Particle size | 1.7 µm, 2.6 µm, 3 µm, 5 µm, 10 µm |
| Phases available | 3 |
| Catalogue codes | 57 |
Overview
LC-MS Analysis
Clarity Oligo-XT
- First choice for analytical to preparative scale chromatography
- pH stable 1-12
- 100% aqueous mobile phase stable
- Core-shell particle technology provides improved speed, resolution, and sensitivity
- Easily scale analytical LC-MS methods to preparative scale for isolation/purification
- 1.7µm particles offer increased performance over existing sub-2µm methods
Clarity Oligo-MS
- Select if alternative selectivity is needed for analytical scale chromatography
- pH stable from 1.5-8.5
- Core-shell particle technology provides improved speed, resolution, and sensitivity
- Easily transfer quantitative LC-MS methods to any system with 2.6µm particles
- 1.7µm particles offer increased performance over existing sub-2µm methods
Clarity Oligo-RP
- Select if alternative selectivity is needed for analytical to preparative scale chromatography
- pH stable from 1.0-12
- Silica-organic grafting to create composite particle for improved robustness
- Easily scale analytical LC-MS methods to preparative scale for isolation/purification
Material Characteristics
| Clarity Products Porous | Particle Support | Bonded Phase | Particle Shape/Size (μm) | Pore Size(Å) | Surface Area (m2/g) |
|---|---|---|---|---|---|
| Core-shell | C18 | 1.7, 2.6, 5 | 100 | 200 | |
| Core-shell | C18 | 1.7, 2.6, 5 | 100 | 200 | |
| TWIN (silica, organic composite) C18 3, 5, 10 110 375 | C18 | 3, 5, 10 | 110 | 375 |
Clarity BioSolutions Product Selection
Purification
| Clarity QSP™ | Clarity Oligo-RP™ LC Columns Clarity Oligo-XT LC Columns | Clarity RP-Desalting™ | |
|---|---|---|---|
| Primary Use | High-throughput, trityl-on RPC purification | RP-HPLC purification of failure sequences from target sequences | Quick removal or salt & excess reagent |
| Purities | >90% | >90% | ~70% |
| Recoveries | ~90% | ~70% | ~70% |
| Synthesis Scale Load | Up to 50 µmol | Up to 50 µmol | Up to 1 µmol |
| Oligo Types | DNA, RNA/RNAi, Thioates, Dye-labled, Modified |
Characterization / Analysis
| Clarity Oligo-RP™ LC Columns | Clarity Oligo-MS™ LC Columns Clarity Oligo-XT LC Columns | Clarity OTX™ LC Columns | |
|---|---|---|---|
| Primary Use | RP-LC-MS analysis with optimized selectivity and sensitivity | Rapid, high efficiency RP-LC-MS analysis for QC and characterization | Extraction of oligo therapeutics from biological samples for LC-MS bioanalysis |
| Oligo Length | ≤ 60 mer | ≤ 60 mer | ≤ 40 mer |
| Recommended Mobile Phase | TEA / HFIP | TEA/HFIP/MeOH | N/A |
Phases
Clarity No Phase
Recommended Use: —
Particle Size: 10 µm, 5 µm
Clarity Oligo-MS
Core-shell silica particle bonded with C18
Recommended Use: Rapid LC-MS analysis and QC of synthetic oligonucleotide research reagents and therapeutics
Particle Size: 2.6 µm, 1.7 µm
Clarity Oligo-RP
Fully porous organo-silica bonded with C18
Recommended Use: Purification of synthetic oligonucleotide mixtures
Particle Size: 10 µm, 5 µm, 3 µm
Clarity Oligo-XT
Core-shell bonded with C18
Recommended Use: Rapid, high efficiency RP-LC-MS from purification to characterization
Particle Size: 5 µm, 2.6 µm, 1.7 µm
Documents
- Supporting Docs: Clarity Overview Flyer
- Guide: 2026 Product Catalog – Explore Full Range | Phenomenex
- Supporting Docs: HPLC Column Care Guide
- Poster: Oligonucleotide Solution Workflow Infographic
- Brochures: United States Pharmacopeia (USP) Allowable Adjustments Guide
- Technical Notes: Synthetic Oligonucleotides by LC-MS
- Technical Notes: Synthetic Oligonucleotides by LC/MS (TN-1052)
- Guide: Protein and Peptide Users Guide
- Supporting Docs: Meeting All Your PREP Needs
- Brochures: Clarity Biosolutions for Synthetic DNA/RNA
- Technical Notes: Avoiding Depurination During Trityl-on Purification (TN-0008)
- Technical Notes: Extraction and LC/MS Analysis of Oligo Therapeutics from Biological Matrices (TN-0048)
FAQs
What is chromatography?
Chromatography is the separation of components in a mixture based on their chemical nature. Chromatography can be performed in either liquid (HPLC) or gas (GC) forms. Liquid chromatography, specifically High Pressure Liquid Chromatography (HPLC), involves a stationary phase (sorbent), a mobile phase (liquid) and the analyte or compounds of interest. Analytes or compounds of interest are injected onto an HPLC column (packed with sorbent that contains a variety of chemistries) in mobile phase. As the mobile phase, which is carrying the analyte or compounds of interest, travels across the stationary phase, the analyte or compounds of interest separate from each other as they interact with the stationary phase, each eluting from the column at various times. Gas chromatography (GC) is similar to HPLC in that is utilized with working analytes or compounds of interest that can be vaporized without decomposing. In GC, gas is used instead of a liquid (like in HPLC). As analytes or compounds of interest travel in the gas mobile phase and interact with the stationary phase, eluting at various times.
What is the loading capacity of Clarity Oligo-RP?
The following loading values are consistent with the specified internal diameter for a 20-40mer oligonucleotide: 4.6 mm/250 nanomol 10 mm/1 µmol 21.2 mm/5-10 µmol When considering the mass of the oligonucleotide being loaded onto the column in nanomole values, we can convert from nanomole to milligrams by considering that one deoxyribonucleotide monophosphate is equivalent to approximately 300 Daltons. Therefore, when 250 nmol of a 20mer oligo is loaded onto a 4.6 mm ID column, the loading mass is about 1.5 mg.
What is an acceptable standard to use for LC/MS method development for oligonucleotides?
We recommend a poly dT ladder of 12-18mer, which is commonly used for synthetic oligonucleotide method development.
Manufacturer information: Clarity HPLC/PREP Columns – Phenomenex (USA). MAS Brand is the official representative of Phenomenex in Egypt.
Specifications for Clarity LC Columns
| Column Phase | Oligo-MS or Oligo-RP or Oligo-XT |
| Column Particle Size | 1.7 or 2.6 or 3 or 5 or 10 |
| Column Length | 30 or 50 or 100 or 150 or 250 or N/A |
| Column Internal Diameter | 2 or 2.1 or 4.6 or 10 or 21.2 or 30 or 50 or N/A |
| Column Format | Bulk Media or Analytical or Preparative (AXIA Packed) |
| Column Option | Standard or AXIA Packed |
| Manufacturer | Phenomenex |
| Column Pore Size | 100 |
