Subcellular Localization Solutions of Transcripts

Subcellular Localization Solutions of Transcripts

In a variety of living systems, thousands of RNAs are localized to specific subcellular locations, and the spatial organization of intracellular RNAs and the spatial patterns of cells within tissues play a critical role in many biological processes.

Our transcriptomic subcellular localization service

Intracellular spatially resolved transcriptome quantification enables RNA analysis and localization. CD Genomics uses multiple high-throughput methods in spatial transcriptomics combined with bioinformatics approaches to predict, analyze, and localize RNA species in different subcellular compartments, which allows researchers to observe transcriptionally distinct cellular states corresponding to different cell cycle phases, and spatial patterns of transcriptionally distinct cells.

Many mRNAs show specific patterns of subcellular localizationFigure 1. Many mRNAs show specific patterns of subcellular localization. (Kelsey C. M., et al., 2009)

Our analyzable target RNA

  • lncRNA subcellular localization

Long-stranded noncoding RNA (lncRNA) are involved in biological processes throughout the cell, including the nucleus, chromatin, and cytoplasmic lysis. However, most lncRNAs remain unannotated and their functional annotation is difficult due to the low conserved nature of lncRNAs and their tissue- and development-specific expression.

LncRNA subcellular localization provided by CD Genomics provides a wealth of information in terms of its biological function, and we can predict lncRNA subcellular localization directly from lncRNA transcript sequences. Our lncRNA subcellular localization predictions will help to examine the impact of disease-associated point mutations and copy number variants on lncRNA function.

  • mRNA subcellular localization

Subcellular localization of messenger RNA (mRNA) allows precise control of protein product synthesis and manipulation of location, so localizing mRNA may be more beneficial than directly targeting protein products.

DNA, mRNA, and protein

CD Genomics can use in situ hybridization techniques and high-throughput methods in spatial transcriptomics (MERFISH, smFISH, APEX-seq, etc.) for mRNA localization hypothesis and differential localization analysis, which are important for the spatial regulation of gene activity.

How we perform transcript subcellular localization services

RNA expression profiles and spatial distribution regulate many cellular functions, and CD Genomics uses high-throughput methods and bioinformatics techniques to analyze the content of the subcellular transcriptome, which allows us to simultaneously analyze the localization of thousands of transcripts, which can rapidly expand researchers' understanding of the mechanisms, and functions, of RNA localization.

Techniques to study RNA localizationFigure 2. Techniques to study RNA localization. (Fazal F. M., et al., 2019)

What we do better

  • Nearly genome-wide, spatially resolved RNA analysis can be performed on individual cells with high precision and detection efficiency.
  • Can simultaneously map the spatial localization of thousands of endogenous RNAs in living cells.
  • Complete sequence details of any RNA type can be captured in any subcellular region to compare RNA variants and heterodimers.


  1. Kelsey C. M., et al., (2009). "mRNA Localization: Gene Expression in the Spatial Dimension." Cell, 136(4): 719-730.
  2. Fazal F. M., et al., (2019). "Subcellular Spatial Transcriptomes: Emerging Frontier for Understanding Gene Regulation. " Cold Spring Harbor symposia on quantitative biology, 84: 31-45.
For research use only, not intended for any clinical use.

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