Details for: TTC28 AS1

Gene ID: 284900

Gene Type:  ncRNA (Non-coding RNA)  - A functional RNA molecule that is transcribed from DNA but not translated into a protein. Includes classes like miRNA and lncRNA.

Symbol: TTC28 AS1

Ensembl ID: ENSG00000235954

Description: TTC28 antisense RNA 1

Cell Significance Landscape

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 11.34
    rCSI 40.79%
    PRS 76.36
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 10.97
    rCSI 26.65%
    PRS 76.19
  • cardiac muscle cell CL0000746
    CSI 10.94
    rCSI 15.7%
    PRS 83.26
  • L6b glutamatergic cortical neuron CL4023038
    CSI 10.47
    rCSI 32.71%
    PRS 79.67
  • mesothelial cell CL0000077
    CSI 7.61
    rCSI 29.75%
    PRS 74.46
  • cardiac endothelial cell CL0010008
    CSI 7.55
    rCSI 30.47%
    PRS 91.31
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 7.32
    rCSI 27.66%
    PRS 78.52
  • retinal pigment epithelial cell CL0002586
    CSI 6.48
    rCSI 12.88%
    PRS 87.57
  • naive thymus-derived CD4-positive, alpha-beta T cell CL0000895
    CSI 6.41
    rCSI 8.06%
    PRS 96.89
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 6.38
    rCSI 37.58%
    PRS 78.79
  • retinal rod cell CL0000604
    CSI 6.37
    rCSI 11.23%
    PRS 87
  • CD4-positive, alpha-beta thymocyte CL0000810
    CSI 5.26
    rCSI 4.21%
    PRS 95.25
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 5
    rCSI 8.83%
    PRS 77.8
  • cerebral cortex endothelial cell CL1001602
    CSI 4.67
    rCSI 8.09%
    PRS 85.69
  • neuron CL0000540
    CSI 4.2
    rCSI 11.2%
    PRS 79.19
  • naive thymus-derived CD8-positive, alpha-beta T cell CL0000900
    CSI 4.18
    rCSI 2.94%
    PRS 96.66
  • Mueller cell CL0000636
    CSI 4.11
    rCSI 9.38%
    PRS 84.59
  • choroid plexus epithelial cell CL0000706
    CSI 4.01
    rCSI 6.57%
    PRS 84.14
  • melanocyte CL0000148
    CSI 3.81
    rCSI 2.83%
    PRS 87.35
  • Schwann cell CL0002573
    CSI 3.58
    rCSI 10.19%
    PRS 87.41
  • retinal ganglion cell CL0000740
    CSI 3.56
    rCSI 7.87%
    PRS 80.73
  • interneuron CL0000099
    CSI 3.49
    rCSI 7%
    PRS 84.96
  • naive B cell CL0000788
    CSI 3.45
    rCSI 2.96%
    PRS 93.86
  • neural crest cell CL0011012
    CSI 3.42
    rCSI 2.7%
    PRS 84.2
  • GABAergic amacrine cell CL4030027
    CSI 3.38
    rCSI 11.56%
    PRS 78.69
  • sncg GABAergic cortical interneuron CL4023015
    CSI 3.36
    rCSI 5.4%
    PRS 79.26
  • renal interstitial pericyte CL1001318
    CSI 3.21
    rCSI 8.84%
    PRS 88.2
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 3.17
    rCSI 3.94%
    PRS 76.21
  • parietal epithelial cell CL1000452
    CSI 3.1
    rCSI 8.29%
    PRS 85.72
  • CD14-low, CD16-positive monocyte CL0002396
    CSI 3
    rCSI 2.31%
    PRS 93.63
  • inhibitory interneuron CL0000498
    CSI 2.99
    rCSI 6.9%
    PRS 81.95
  • cerebellar granule cell CL0001031
    CSI 2.8
    rCSI 4.12%
    PRS 85.96
  • adipocyte CL0000136
    CSI 2.79
    rCSI 3.58%
    PRS 82.99
  • neuroblast (sensu Nematoda and Protostomia) CL0000338
    CSI 2.75
    rCSI 3.18%
    PRS 83.8
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 2.68
    rCSI 4.51%
    PRS 78.38
  • kidney interstitial alternatively activated macrophage CL1000695
    CSI 2.64
    rCSI 6.87%
    PRS 92.09
  • radial glial cell CL0000681
    CSI 2.58
    rCSI 3.58%
    PRS 89.39
  • sst GABAergic cortical interneuron CL4023017
    CSI 2.54
    rCSI 3.27%
    PRS 79.46
  • regulatory T cell CL0000815
    CSI 2.48
    rCSI 2.88%
    PRS 85.76
  • retinal bipolar neuron CL0000748
    CSI 2.41
    rCSI 4.51%
    PRS 82.86
  • amacrine cell CL0000561
    CSI 2.4
    rCSI 6.96%
    PRS 82.86
  • rod bipolar cell CL0000751
    CSI 2.34
    rCSI 4.21%
    PRS 86.23
  • astrocyte of the cerebral cortex CL0002605
    CSI 2.32
    rCSI 5.2%
    PRS 78.79
  • retinal cone cell CL0000573
    CSI 2.28
    rCSI 3.67%
    PRS 83.4
  • stem cell CL0000034
    CSI 2.21
    rCSI 2.13%
    PRS 87.02
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 2.2
    rCSI 6.89%
    PRS 81.34
  • kidney connecting tubule epithelial cell CL1000768
    CSI 2.15
    rCSI 5.46%
    PRS 84.91
  • L4 intratelencephalic projecting glutamatergic neuron CL4030063
    CSI 2.1
    rCSI 5.03%
    PRS 80.82
  • direct pathway medium spiny neuron CL4023026
    CSI 2.08
    rCSI 49.85%
    PRS 76.15
  • indirect pathway medium spiny neuron CL4023029
    CSI 2.05
    rCSI 49.54%
    PRS 76.29
  • VIP GABAergic cortical interneuron CL4023016
    CSI 2
    rCSI 2.39%
    PRS 78.43
  • kidney loop of Henle thin ascending limb epithelial cell CL1001107
    CSI 1.95
    rCSI 5.05%
    PRS 88.21
  • Bergmann glial cell CL0000644
    CSI 1.95
    rCSI 2.67%
    PRS 83.57
  • glycinergic amacrine cell CL4030028
    CSI 1.91
    rCSI 4.97%
    PRS 85.19
  • OFF midget ganglion cell CL4033047
    CSI 1.87
    rCSI 38.02%
    PRS 83.22
  • glioblast CL0000030
    CSI 1.86
    rCSI 2.97%
    PRS 83.68
  • macroglial cell CL0000126
    CSI 1.83
    rCSI 4.71%
    PRS 87.31
  • neural progenitor cell CL0011020
    CSI 1.76
    rCSI 7.73%
    PRS 80.6
  • pancreatic acinar cell CL0002064
    CSI 1.6
    rCSI 2.12%
    PRS 93.53
  • glutamatergic neuron CL0000679
    CSI 1.59
    rCSI 3.26%
    PRS 79.56
  • ON parasol ganglion cell CL4033052
    CSI 1.31
    rCSI 18.55%
    PRS 83.63
  • S cone cell CL0003050
    CSI 1.29
    rCSI 5.66%
    PRS 86.37
  • GABAergic neuron CL0000617
    CSI 0.97
    rCSI 3.27%
    PRS 77.9
  • H2 horizontal cell CL0004218
    CSI 0.93
    rCSI 4.63%
    PRS 85.76
  • L5/6 near-projecting glutamatergic neuron CL4030067
    CSI 0.93
    rCSI 3.06%
    PRS 79.67
  • pulmonary alveolar type 1 cell CL0002062
    CSI 0.77
    rCSI 4.45%
    PRS 88.03
  • diffuse bipolar 3a cell CL4033029
    CSI 0.49
    rCSI 3.35%
    PRS 83.18

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

Comma-separated if multiple.
Comma-separated if multiple.
Legend:
  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

Loading network (please wait)...

Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary [TTC28 AS1](/details-gene/284900) is a non-coding antisense RNA (ncRNA) located on chromosome 22. **Overall**, expression data reveals a highly specific and significant role for this gene in the central nervous system and cardiac tissue. It is a defining marker for several subtypes of glutamatergic cortical neurons, including [L5 extratelencephalic projecting glutamatergic cortical neuron](/details-cell/CL4023041) and [L2/3-6 intratelencephalic projecting glutamatergic neuron](/details-cell/CL4023040). Concurrently, it shows equally high significance in [cardiac muscle cell](/details-cell/CL0000746), suggesting a potential pleiotropic function in regulating gene expression within these distinct, highly excitable cell types. ## Cellular Roles and Expression Landscape The expression profile of [TTC28 AS1](/details-gene/284900) points to a specialized function, primarily within the nervous and cardiovascular systems. **Overall**, its most significant expression is observed in a range of excitatory neurons of the cerebral cortex, establishing it as a key marker for this lineage. These include [L5 extratelencephalic projecting glutamatergic cortical neuron](/details-cell/CL4023041) (CSI: 11.34), [L2/3-6 intratelencephalic projecting glutamatergic neuron](/details-cell/CL4023040) (CSI: 10.97), and [L6b glutamatergic cortical neuron](/details-cell/CL4023038) (CSI: 10.47). This restricted pattern within specific neuronal subtypes suggests a role in establishing or maintaining their unique functional identities. Beyond the brain, [TTC28 AS1](/details-gene/284900) demonstrates a remarkably high significance in [cardiac muscle cell](/details-cell/CL0000746) (CSI: 10.94), with a value comparable to that of the top-ranked neurons. This dual-tissue specificity is unusual and may indicate its involvement in a fundamental biological process shared between these cell types, such as the regulation of excitability or contractility. Expression is also noted in related cardiovascular cells like [cardiac endothelial cell](/details-cell/CL0010008) and in specialized sensory cells of the eye, including [retinal pigment epithelial cell](/details-cell/CL0002586) and [retinal rod cell](/details-cell/CL0000604). Moderate significance is also detected in developing T-cells, such as [naive thymus-derived CD4-positive, alpha-beta T cell](/details-cell/CL0000895) and [CD4-positive, alpha-beta thymocyte](/details-cell/CL0000810), hinting at a potential, albeit less prominent, role during T-cell maturation. ## Pathways and Molecular Function As a non-coding antisense RNA, [TTC28 AS1](/details-gene/284900) is predicted to function as a post-transcriptional regulator of gene expression. Specific functional annotation data from Gene Ontology or Reactome pathways are not available. However, based on its classification, its primary mechanism likely involves direct binding to the messenger RNA of its sense-strand counterpart, `TTC28`. This interaction could modulate the stability, splicing, or translational efficiency of the `TTC28` transcript. Alternatively, [TTC28 AS1](/details-gene/284900) may act *in trans* to regulate distant genes or function as a molecular scaffold to guide chromatin-modifying complexes, thereby influencing the transcriptional landscape of the highly specialized cells in which it is expressed. Its specific expression pattern suggests it is involved in fine-tuning the gene networks essential for the function of glutamatergic neurons and cardiomyocytes. ## Research Directions The distinct dual-tissue expression pattern of [TTC28 AS1](/details-gene/284900) in the brain and heart, coupled with its nature as a regulatory RNA, prompts several lines of investigation. **Testable Hypotheses:** 1. [TTC28 AS1](/details-gene/284900) acts as a negative regulator of its sense-strand counterpart, `TTC28`, in both terminal glutamatergic neurons and mature cardiomyocytes, with this regulation being critical for cellular homeostasis. 2. The expression of [TTC28 AS1](/details-gene/284900) is driven by a shared transcription factor or epigenetic program that is active during the development of both cortical neurons and cardiac muscle, indicating a role in a conserved pathway related to cellular excitability or metabolism. 3. [TTC28 AS1](/details-gene/284900) interacts with RNA-binding proteins that are themselves highly expressed in neurons and heart tissue, serving as a scaffold to modulate the function of these proteins on a broader set of target transcripts. **Key Experimental Approach:** To test the hypothesis that [TTC28 AS1](/details-gene/284900) regulates its sense transcript, `TTC28` (Hypothesis 1), a loss-of-function study could be performed using antisense oligonucleotides (ASOs) or CRISPRi to specifically degrade or repress [TTC28 AS1](/details-gene/284900) in human iPSC-derived cortical neurons and cardiomyocytes. The effect on `TTC28` mRNA and protein levels would be quantified via RT-qPCR and western blot. A concomitant RNA-sequencing analysis would reveal the broader transcriptomic consequences of its knockdown, clarifying whether its regulatory activity is limited to `TTC28` or extends to other genes. **Therapeutic Potential:** As a non-coding RNA, [TTC28 AS1](/details-gene/284900) is a suitable candidate for therapeutic intervention with nucleic acid-based drugs like ASOs. Its high cellular specificity to neurons and cardiac muscle is advantageous for minimizing off-target effects. If its dysregulation is linked to neurological or cardiac diseases (e.g., epilepsy, arrhythmia, or cardiomyopathy), ASO-mediated inhibition could be a viable strategy to restore normal function. However, its precise role must first be defined, as any intervention would carry the risk of neurotoxicity or cardiotoxicity.