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  • NEBNext® Magnesium RNA Fragmentation Module


    The NEBNext® Magnesium RNA Fragmentation Module has been optimized to fragment RNA into small pieces using divalent cations under elevated temperature.

    The NEBNext Magnesium RNA Fragmentation Module contains buffers that are suited for RNA fragmentation. Each of these components must pass rigorous quality control listed on each individual component page.

    For larger volume requirements, customized and bulk packaging is available by purchasing through the OEM/Bulks department at NEB. Please contact nebsolutions@neb.com for further information.

    Figure 1: Relative size distribution of eukaryotic mRNA fragments as seen using the Bioanalyzer 2100. Figure 1: Relative size distribution of eukaryotic mRNA fragments as seen using the Bioanalyzer 2100
    Poly(A)+ mRNA (40ng) purified from the Universal Human Reference Total RNA (Stratagene) was fragmented in 1 X NEB Next Magnesium RNA Fragmentation Buffer for 1–5 minutes at 94°C. Fragmentation Reaction was stopped in1X NEBNext Fragmentation Stop Solution. Samples were diluted 1:10 in Nuclease-Free Water and analyzed in the Bioanalyzer 2100.

    Functional Validation

    Each set of reagents is functionally validated together through construction and sequencing of a transcriptome library and sequenced on a .

    Lot Control

    The lots provided are managed separately and qualified by additional functional validation. Individual reagents undergo standard enzyme activity and quality control assays, and also meet stringent criteria in the additional quality controls listed on each individual component page

    Reagents Supplied

    The following reagents are supplied with this product:

    Store at (°C)Concentration
    NEBNext® RNA Fragmentation Buffer-20
    NEBNext RNA Fragmentation Stop Solution-20

    Advantages and Features


    RNA Fragmentation

    Properties and Usage

    Materials Required but not Supplied

    • RNeasy MinElute Cleanup Kit (Qiagen # 74204)
    • 3M Sodium Acetate, pH 5.2
    • 100% Ethanol
    • 70% Ethanol 
    • Linear Acrylamide 10 mg/ml

    Storage Temperature



    1. Can I use TE to resuspend RNA during RNA isolation for fragmentation?
    2. Do I need any reagents that are not supplied in the kit?
    3. How long should I incubate the fragmentation reaction?
    4. Which divalent metal ion does the NEBNext® RNA Fragmentation Buffer contain?
    5. How can I assess the Yield and the Size Distribution of the Fragmented RNA?
    6. Which are the RNA fragments sizes recommend for Next Generation Sequencing (NGS)?
    7. What are the differences between the reaction products of fragmentation with the NEBNext® Magnesium RNA Fragmentation Module and the NEBNext® RNase III RNA Fragmentation Module?


    1. NEBNext® Magnesium RNA Fragmentation Module Protocol (E6150)


    The Product Manual includes details for how to use the product, as well as details of its formulation and quality controls. The following file naming structure is used to name these document files: manual[Catalog Number].

    Usage Guidelines & Tips

    Interactive Tools

    Safety Data Sheet

    The following is a list of Safety Data Sheet (SDS) that apply to this product to help you use it safely.