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Epigenetic & Base Analog Oligonucleotide Modifications

Custom DNA/RNA oligos incorporating 5‑mC, 5‑hmC, 5‑fC, 5‑caC, 5‑hmU, m6dA/m6A, zebularine and more — for methylation mapping, TET/ADAR pathway studies, enzyme validation, controls, and calibration standards.

ISO 9001:2015 / ISO13485:2016 45+ Years of Expertise U.S.A. Facilities-Texas GLP/GMP-Aligned RUO → GMP-like Scale Full QC & Analytics
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Overview Products & Codes Design Notes FAQ Speak to Scientist

Overview

Bio‑Synthesis manufactures epigenetic and base‑analog–modified oligonucleotides to support methylation profiling, TET oxidation studies, reader/writer/eraser enzyme assays, antibody validation, and assay calibration. We provide DNA and RNA formats, single‑ or double‑stranded, and match purification/QC to your use case (HPLC/UPLC, LC‑MS, OD260; optional endotoxin/residuals/stability).

5‑mC 5‑hmC 5‑fC 5‑caC 5‑hmU m6dA m6A Zebularine 8‑oxo‑dG 2‑Aminopurine 7‑deaza A/G
  • Formats: ssDNA/dsDNA, ssRNA, siRNA; tube, vial, or plate packaging with labels/barcodes.
  • Scale: discovery µmol to gram/kilogram‑class supply with RUO→GMP‑like documentation.
  • Expert help: sequence design, placement strategies, and control sets for method development.

Products & Codes

Epigenetic & Base Analogs

Hide products and Notes
Cytosine family Uracil/Thymine family Adenine family Other analogs
Product Description Application Code
Cytosine Family (DNA/RNA)
5-Carboxy dC 5-carboxy-2′-deoxycytidine (5-caC) TET pathway; oxidation controls; antibody validation [5-ca-dC]
5-formyl dC 5-formyl-2′-deoxycytidine (5-fC) Intermediate in active demethylation; standard curves [5-for-dC]
5-hm dC (5-Hydroxymethyl-dC) 5-hydroxymethyl-2′-deoxycytidine (5-hmC) Oxidative demethylation studies; antibody calibration [5hmdC]
5-methyl deoxycytosine 5-methyl-2′-deoxycytidine (5-mC) Methylation controls; enzyme assays; qPCR standards [5mdC]
5-methyl-Cytosine (RNA) 5-methyl-cytidine (5-mrC) RNA methylation biology; reader assays [5mrC]
Uracil / Thymine Family
5-Hydroxymethyl-dU 5-hmU (deoxyuridine) Oxidative deamination models; antibody controls [5hmdU]
5-formyl-dU 5-fU (deoxyuridine) Damage/repair studies; calibration standards [5for-dU]
Adenine Family (DNA/RNA)
N6-Methyl dA (m6dA) N6-methyl-2′-deoxyadenosine Epigenetic adenine marks; enzyme validation [m6dA]
N6-Methyl rA (m6A) N6-methyl-adenosine RNA methylation (m6A) pathway; reader/writer assays [m6A]
Other Analogs & Probes
rZebularine Ribo-zebularine DNMT inhibitor analog; control studies [rZ]
Zebularine — deoxy-5-methyl Deoxy-zebularine (5-methyl) DNMT/repair pathway tools [dZ-5me]
8-oxo-dG 8-oxoguanine lesion analog DNA damage/repair; oxidative stress assays [8oxo-dG]
2-Aminopurine Fluorescent adenine analog Structure/function; monitoring base stacking [2AP]
7-deaza-A / 7-deaza-G Base analogs lacking N7 Structure probing; polymerase studies [7dz-A]/[7dz-G]
  • Placement: Introduce analogs at defined sites or as whole‑strand variants for controls/calibration.
  • Verification: We recommend LC‑MS identity and HPLC/UPLC purity for all epigenetic analog sets.

Design Notes

Practical Tips

  • Controls: Order matched pairs (e.g., 5‑mC / 5‑hmC / 5‑fC / 5‑caC) to build standard curves and antibody validation sets.
  • Strand context: Sequence context (CpG, CpH) can affect antibody and enzyme readouts; provide target locus if relevant.
  • RNA work: For m6A or 5‑mrC, consider 2′‑mods (2′‑OMe/2′‑F/MOE) when nuclease resistance is required.
  • QC & docs: Add optional endotoxin/residuals/stability when materials are used in vivo or for tech transfer.

Need a matched epigenetic standards set?

We’ll design a panel (5‑mC/5‑hmC/5‑fC/5‑caC, m6A/m6dA, etc.) with the right lengths, placements, and QC to fit your assay.

Speak to a Scientist Browse All Modifications

FAQ

Which formats do you support (DNA/RNA; single/duplex)?
ssDNA/dsDNA and ssRNA, plus siRNA duplexes on request. We’ll recommend placement (single site vs multi‑site) based on your assay.
Can you provide matched epigenetic control sets?
Yes—common kits include 5‑mC/5‑hmC/5‑fC/5‑caC ladders, m6A/m6dA pairs, and mixed panels for antibody or enzyme validation.
What QC do you recommend?
LC‑MS identity and HPLC/UPLC purity are standard. Optional tests include endotoxin, residual solvents/moisture, and time‑scheduled stability.
Can you help with assay design and packaging?
Absolutely—sequence design, control placement, formulation, and plate/vial packaging with labels/barcodes are all available.
More FAQ'sAll FAQ's

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