Details for: KDM7A DT

Gene ID: 100134229

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: KDM7A DT

Ensembl ID: ENSG00000260231

Description: KDM7A divergent transcript

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • goblet cell CL0000160
    CSI 5.54
    rCSI 5.23%
    PRS 98.82
  • erythrocyte CL0000232
    CSI 4.14
    rCSI 9.4%
    PRS 98.16
  • respiratory suprabasal cell CL4033048
    CSI 3.37
    rCSI 4.32%
    PRS 99.44
  • retina horizontal cell CL0000745
    CSI 2.46
    rCSI 3.75%
    PRS 98.21
  • club cell CL0000158
    CSI 2.39
    rCSI 3.5%
    PRS 99.04
  • retinal cone cell CL0000573
    CSI 1.91
    rCSI 3.08%
    PRS 96.99

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

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  • Node Color (Target Cell CSI, relative to current network):
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    • High
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    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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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 [KDM7A DT](/details-gene/100134229) is a long non-coding RNA located on human chromosome 7q34. Its genomic position, transcribed divergently from the promoter of the protein-coding gene KDM7A, strongly suggests a role in epigenetic regulation, potentially by modulating the expression or activity of its neighboring histone demethylase. **Overall** expression analysis reveals that [KDM7A DT](/details-gene/100134229) is a significant transcript in a diverse array of specialized cell types. It shows the highest significance in secretory epithelial cells of mucosal linings, such as [goblet cells](/details-cell/CL0000160), and is also notably significant in terminal hematopoietic cells like [erythrocytes](/details-cell/CL0000232) and specific neuronal populations within the retina. This pattern suggests a function in the establishment or maintenance of terminally differentiated cell states. ## Cellular Roles and Expression Landscape The expression landscape of [KDM7A DT](/details-gene/100134229) indicates a role in highly specialized, terminally differentiated tissues. Its highest significance scores are found in secretory cells within epithelial barriers, including [goblet cells](/details-cell/CL0000160) (CSI: 5.54), [respiratory suprabasal cells](/details-cell/CL4033048) (CSI: 3.37), and [club cells](/details-cell/CL0000158) (CSI: 2.39). This clustering of significant expression in the respiratory epithelium points towards a potential involvement in cellular differentiation, mucus production, or host defense pathways in the airways. A distinct and notable finding is the high significance of [KDM7A DT](/details-gene/100134229) in [erythrocytes](/details-cell/CL0000232) (CSI: 4.14). As mature red blood cells are anucleated and transcriptionally inactive, this suggests that the transcript is highly expressed during erythropoiesis and remains stable and abundant in the circulating cell. Furthermore, the gene shows significant expression in the nervous system, specifically in specialized neurons of the eye, including [retina horizontal cells](/details-cell/CL0000745) (CSI: 2.46) and [retinal cone cells](/details-cell/CL0000573) (CSI: 1.91), implying a possible function in retinal biology and photoreceptor maintenance. The diverse yet specific cellular contexts of its expression suggest that [KDM7A DT](/details-gene/100134229) may be a key regulator of disparate terminal differentiation programs. ## Pathways and Molecular Function The precise molecular functions of [KDM7A DT](/details-gene/100134229) have not been formally annotated. However, based on its genomic organization as a divergent transcript, its primary role is hypothesized to be the *cis*-regulation of the adjacent KDM7A gene. KDM7A is a lysine-specific histone demethylase that removes methyl groups from H3K9me2 and H3K27me2, epigenetic marks generally associated with transcriptional repression. Therefore, [KDM7A DT](/details-gene/100134229) may function as a lncRNA scaffold or guide, influencing local chromatin structure to fine-tune the expression of KDM7A and other nearby genes. This epigenetic control mechanism could be essential for establishing the stable gene expression patterns that define the identity and function of the specialized cells where it is highly expressed, such as [goblet cells](/details-cell/CL0000160) and neuronal subtypes. ## Research Directions The specific expression patterns and putative regulatory nature of [KDM7A DT](/details-gene/100134229) give rise to several testable hypotheses. 1. [KDM7A DT](/details-gene/100134229) functions as a *cis*-acting lncRNA that directly modulates the transcription of KDM7A, thereby controlling the epigenetic landscape required for the terminal differentiation of respiratory epithelial cells. 2. The stable persistence of [KDM7A DT](/details-gene/100134229) in anucleated [erythrocytes](/details-cell/CL0000232) suggests a post-transcriptional role, where it may act as a microRNA sponge or an RNA-binding protein scaffold to regulate mRNA translation or protein stability during the final stages of erythropoiesis and in the mature cell. 3. In retinal cells, [KDM7A DT](/details-gene/100134229) expression is critical for maintaining the epigenetic silencing of inappropriate gene programs, thus preserving the specialized function and long-term viability of photoreceptors and associated neurons. To test the primary hypothesis regarding its regulatory role on KDM7A, a key experiment would be to use CRISPR interference (CRISPRi) to specifically repress the promoter of [KDM7A DT](/details-gene/100134229) in an *in vitro* air-liquid interface culture of primary human bronchial epithelial cells. Subsequent analysis via qRT-PCR and Western blotting would determine the direct impact on KDM7A mRNA and protein levels, while RNA-sequencing could assess broader downstream consequences on the goblet and club cell differentiation programs. Given its specific expression in respiratory epithelium, [KDM7A DT](/details-gene/100134229) presents a potential therapeutic target for diseases involving epithelial dysfunction, such as asthma or chronic obstructive pulmonary disease (COPD). If it is found to drive pathological states like mucus hypersecretion, it could be a candidate for inhibition using targeted therapies such as inhaled antisense oligonucleotides (ASOs). However, a thorough understanding of its regulatory network is required before its therapeutic potential can be fully evaluated.