Why Compartment-Specific RNA Matters
- RNA function depends on where it lives in the cell
- circRNA, lncRNA, and miRNA interactions are location-dependent
- Mislocalization drives disease, especially cancer
- Total RNA hides important regulatory events
- Mechanistic studies require clean fractions
Separate nuclear and cytoplasmic RNA in a single workflow—
Get clearer, more relevant data from every sample.
Our C&N RNA Kit separates RNA from cytoplasmic (C) and nuclear (N) fractions, giving you compartment-specific insights. This allows you to:
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Understand RNA localization
Different RNA species have distinct functions depending on whether they reside in the cytoplasm or nucleus.
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Detect regulatory RNAs accurately
Nuclear-enriched RNAs, such as long non-coding RNAs (lncRNAs), can be studied without interference from abundant cytoplasmic RNAs.
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Improve experiment sensitivity
By isolating RNAs from specific compartments, downstream analyses like qPCR, RNA-seq, or Northern blotting yield more meaningful results.
TRIzol vs. C&N
Why Researchers Choose the C&N RNA Kit Instead of TRIzol
Traditional total RNA extraction methods such as TRIzol efficiently recover RNA but are not designed to preserve compartment-specific information.
| TRIzol | C&N Kit |
|---|---|
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Not designed for clean cytoplasmic vs nuclear separation
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Purpose-built to separate cytoplasmic and nuclear RNA cleanly
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Fractions can cross-contaminate
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Minimal cross-contamination and consistent
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Results depend heavily on user technique
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Reproducible fractions regardless of skill level
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Long, multi-step protocol
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Simple column-based workflow
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Requires phase separation
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No phase separation
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Difficult to scale
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Faster, cleaner, easier
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Phenol based
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No phenol, no toxic organic solvents
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Good for total RNA But RNA integrity can vary
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Designed to preserve RNA compartment integrity & Delivers high-purity RNA from both fractions
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Hard to preserve nuclear structure during isolation
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Clear distinction between:
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Applications
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lncRNA
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Cancer Biology
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circRNA
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RNA-Protein Interactions
Frequently Asked Questions
Cytoplasmic and nuclear RNA isolation separates RNA molecules from the cytoplasm and nucleus before purification, allowing researchers to study RNA localization and compartment-specific functions.
RNA localization influences gene regulation, RNA processing, translation, and cellular signaling. Understanding where RNA resides can reveal biological mechanisms that are hidden in total RNA samples.
Yes. The kit is commonly used for circRNA localization studies because many circular RNAs show distinct nuclear or cytoplasmic enrichment patterns.
Yes. Both cytoplasmic and nuclear RNA fractions are suitable for downstream applications including RNA-seq, RT-qPCR, Northern blotting, and transcriptomic analyses.
TRIzol is designed for total RNA extraction and does not provide clean separation of nuclear and cytoplasmic fractions. The C&N RNA Kit is specifically optimized for compartment-specific RNA isolation with minimal cross-contamination.
No. The C&N RNA Kit uses a column-based workflow and does not require phenol, chloroform, or phase separation.
The kit can be used to analyze: • circRNAs • lncRNAs • mRNAs • miRNAs • pre-mRNAs • nuclear-retained transcripts • regulatory non-coding RNAs
Yes. Many cancer-associated RNAs display altered cellular localization. Separating nuclear and cytoplasmic fractions can help identify disease-related regulatory mechanisms.
Researchers typically assess fraction purity using compartment-specific markers such as GAPDH (cytoplasmic) and MALAT1, U6, or pre-mRNA markers (nuclear).
Yes. By reducing background RNA from unrelated cellular compartments, compartment-specific RNA isolation can improve biological signal detection and interpretation.
Publications & External References
| Title | LncRNA-MSTRG.16919.1 regulates the proliferation of BHV-1 in MDBK cells through TAK1/TAB1/TAB2/TAB3 complexes |
| Citation | Research Square 2026. |
| Authors | Fan Zhang, Caina Song, Jinzhu Ma, Liquan Yu, Chen Peng, Wenxue Wu, Baifen Song |
| Title | Caspase-mediated DDX46 cleavage unchains antiviral immunity |
| Citation | American Society for Microbiology 2026. |
| Authors | Yanfeng Liu, Zhongyuan Liu, Xiaoqing Ou, Feiyang Zhao, Jingrui Wang, Yang Qu, Xusheng Qiu, Ying Liao, Lei Tan, Cuiping Song, Chan Ding, Yingjie Sun |
| Title | An orthogonal RNA aptamer for targeted RNA regulation in phase-separated subcellular compartments |
| Citation | Nature Communications 2026. |
| Authors | Jingcheng Wang, Kaicheng Ma, Xiaomeng Cao, Huirui Wang, Hao Shang, Yinghui Gao, Mengmeng Wang, Wenru Zhang, Kaige Lyu, Yue Dong, Guangkai Luo, Han Yu, Hui Li, Caixing An, Xindan Zhang, Yingying Wu, Jia Ren, Man Li, Ting Dong, Peiyuan Zhang & Xiaohui Liu |
| Title | Circular RNA circMagi1 regulates the host immune response in respiratory Pseudomonas aeruginosa infection through G3BP2 |
| Citation | Microbiology 2026. |
| Authors | Miao Tang, Yongxin Zhang, Rou Xie, Tong Wu, Peng Sun, Yongxiao Luo, Ruihuan Wang, Teng Ma, Yang Yasmine Yang,Yige Zhang, Chaoyu Zou, Xueli Hu, Jing Shirley Li, Huan Liu, Zhuochong Liu, Qianhua Zhang, Yu Tang, Hongliang Li, Yilin Liu, Yang Yang, Jing Li, Ce Bian, Yongjiang Tang, Xikun Zhou |
| Title | The ANXA2P1-hnRNP F-HK2/c-Myc Positive Feedback Loop Promotes Proliferation and Glycolytic Metabolism in Gastric Cancer |
| Citation | International Journal of Molecular Sciences 2026. |
| Authors | Ping Yang, Yanci Xie, Yuting Lei, Xiaodong Huang, Jieke Wu, Jiaxing Zhang, Siyang Peng, Yidong Chen, Xiangyang Wei, Jieming Zhang, Qiong Yang, Jiaying Li, Weiyu Dai, Xiaosheng Wu, Xinpeng Shi, Yanfeng Hu, Side Liu, Aimin Li, Weimei Tang, Jide Wang |
| Title | Doxorubicin-induced apoptosis and mitochondrial fission are promoted by LncRNA TGFB2-AS1 through BMP7/Smad signaling |
| Citation | Toxicology and Applied Pharmacology 2026. |
| Authors | Hailan Gao, Kai Lan, Hui Gong |
| Title | CircMAPK1-encoded micropeptide circMAPK1-110aa inhibits proliferation and differentiation of goat skeletal muscle satellite cells by suppressing MAPK1/3 phosphorylation |
| Citation | International Journal of Biological Macromolecules 2026. |
| Authors | Qianqian Pan, Mengyu Lou, Mengkang Zhu, Xiaohong He, Xianyong Lan, Sihuan Zhang, Yinghui Ling |
| Title | Shikonin suppresses diffuse large B-cell lymphoma progression by inducing ferritinophagy and ferroptosis via lncRNA ADPGK-AS1 downregulation |
| Citation | Journal of Enzyme Inhibition and Medicinal Chemistry 2026. |
| Authors | Can Chen, Xiaofei Chen, Xilian Huang, Yaping Xie, Pengfei Shi, Shenxian Qian & Zhenzhen Chen |
| Title | Precursor RN ecursor RNA Properties Driving Cr ties Driving Cryptic 3’ Splice Site Selection yptic 3’ Splice Site Selection in SF3B1 Mutant Malignancies |
| Citation | Thesis 2026. |
| Authors | Austin A. Herbert |
| Title | LINC01117 promotes the malignant proliferation of lung adenocarcinoma by increasing HOXD8 mRNA stability |
| Citation | Molecular Medicine Reports 2026. |
| Authors | Lizhong Zeng, Jie Shi, Cai Zhang, Yujiao Dong, Yang Chen, Qiuhong Zhang, Long Zhang, Shuanying Yang |