Details for: PAXIP1 DT

Gene ID: 202781

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: PAXIP1 DT

Ensembl ID: ENSG00000273344

Description: PAXIP1 divergent transcript

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Significant Cells

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

  • GABAergic neuron CL0000617
    CSI 8.29
    rCSI 27.77%
    PRS 69.37
  • hematopoietic precursor cell CL0008001
    CSI 5.59
    rCSI 5.75%
    PRS 93.22
  • melanocyte CL0000148
    CSI 5.4
    rCSI 4%
    PRS 79.28
  • neural progenitor cell CL0011020
    CSI 5.22
    rCSI 22.97%
    PRS 73.42
  • double negative thymocyte CL0002489
    CSI 4.22
    rCSI 2.94%
    PRS 94.16
  • epithelial cell of lung CL0000082
    CSI 3.76
    rCSI 3.11%
    PRS 85.85
  • secretory cell CL0000151
    CSI 3.55
    rCSI 3.7%
    PRS 84.12
  • hematopoietic stem cell CL0000037
    CSI 3.22
    rCSI 2.14%
    PRS 86.94
  • precursor B cell CL0000817
    CSI 3.13
    rCSI 2.74%
    PRS 90.46
  • ciliated epithelial cell CL0000067
    CSI 2.89
    rCSI 2.54%
    PRS 74.94
  • hematopoietic multipotent progenitor cell CL0000837
    CSI 2.82
    rCSI 6.79%
    PRS 94.44
  • peripheral nervous system neuron CL2000032
    CSI 2.67
    rCSI 3.64%
    PRS 77.24
  • rod bipolar cell CL0000751
    CSI 2.64
    rCSI 4.75%
    PRS 78.83
  • ionocyte CL0005006
    CSI 2.62
    rCSI 2.81%
    PRS 86.69
  • pulmonary ionocyte CL0017000
    CSI 2.6
    rCSI 3.16%
    PRS 90.12
  • multi-ciliated epithelial cell CL0005012
    CSI 2.58
    rCSI 2.58%
    PRS 79.13
  • OFF-bipolar cell CL0000750
    CSI 2.52
    rCSI 3.44%
    PRS 85.52
  • neuroblast (sensu Nematoda and Protostomia) CL0000338
    CSI 2.37
    rCSI 2.74%
    PRS 77.22
  • intestinal epithelial cell CL0002563
    CSI 2.28
    rCSI 2.39%
    PRS 82.5
  • mature B cell CL0000785
    CSI 2.27
    rCSI 1.97%
    PRS 92.39
  • fallopian tube secretory epithelial cell CL4030006
    CSI 2.18
    rCSI 2.1%
    PRS 84.04
  • retinal bipolar neuron CL0000748
    CSI 2.17
    rCSI 4.07%
    PRS 74.36
  • glial cell CL0000125
    CSI 2.1
    rCSI 8.01%
    PRS 76.53
  • megakaryocyte-erythroid progenitor cell CL0000050
    CSI 2.08
    rCSI 1.88%
    PRS 83.35
  • retina horizontal cell CL0000745
    CSI 1.93
    rCSI 2.94%
    PRS 81.81
  • basal cell CL0000646
    CSI 1.92
    rCSI 2.57%
    PRS 82.58
  • astrocyte of the cerebral cortex CL0002605
    CSI 1.72
    rCSI 3.85%
    PRS 69.42
  • lung ciliated cell CL1000271
    CSI 1.7
    rCSI 1.97%
    PRS 78.09
  • effector memory CD4-positive, alpha-beta T cell CL0000905
    CSI 1.3
    rCSI 1.77%
    PRS 96.71
  • retinal cone cell CL0000573
    CSI 0.95
    rCSI 1.52%
    PRS 75.83
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 0.8
    rCSI 2.89%
    PRS 66.47

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)

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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 **[PAXIP1 DT](/details-gene/202781)** is a non-coding RNA (ncRNA) located on human chromosome 7q36.2. As its name suggests, it is a divergent transcript originating from the locus of the protein-coding gene *PAXIP1*. The expression profile of **[PAXIP1 DT](/details-gene/202781)** shows high significance across a diverse set of cell types, with its most prominent expression observed in neuronal lineages, particularly [GABAergic neuron](/details-cell/CL0000617)s. It also demonstrates notable significance in various developmental precursors, including [hematopoietic precursor cell](/details-cell/CL0008001)s and [neural progenitor cell](/details-cell/CL0011020)s, suggesting a potential role in cellular differentiation and lineage maintenance in both the nervous and hematopoietic systems. ## Cellular Roles and Expression Landscape The expression pattern of **[PAXIP1 DT](/details-gene/202781)** indicates a specialized role primarily within the nervous system and early hematopoiesis. **Overall**, its most significant expression is in [GABAergic neuron](/details-cell/CL0000617) (CSI: 8.29), suggesting it may be a key marker or functional component of this major inhibitory neuron subtype. This neuronal signature is further supported by its significant presence in [neural progenitor cell](/details-cell/CL0011020), [peripheral nervous system neuron](/details-cell/CL2000032), and retinal [rod bipolar cell](/details-cell/CL0000751). Concurrently, **[PAXIP1 DT](/details-gene/202781)** is highly significant in the hematopoietic system, specifically in undifferentiated or early-stage cells. Its high CSI values in [hematopoietic precursor cell](/details-cell/CL0008001) (CSI: 5.59), [hematopoietic stem cell](/details-cell/CL0000037), and lymphoid progenitors like [double negative thymocyte](/details-cell/CL0002489) and [precursor B cell](/details-cell/CL0000817) are consistent with a function in regulating the early stages of blood cell development. The gene also shows notable expression in other specialized cells, including [melanocyte](/details-cell/CL0000148)s and specific epithelial populations like [epithelial cell of lung](/details-cell/CL0000082) and [pulmonary ionocyte](/details-cell/CL0017000), pointing to a broader, albeit less prominent, functional context. ## Pathways and Molecular Function The provided data does not contain specific functional annotations from Gene Ontology or Reactome pathways for **[PAXIP1 DT](/details-gene/202781)**. However, its identity as an ncRNA transcribed divergently from the *PAXIP1* locus provides a strong clue to its potential mechanism. *PAXIP1* is a well-characterized gene involved in the DNA damage response, genomic stability, and transcriptional regulation. It is therefore plausible that **[PAXIP1 DT](/details-gene/202781)** functions as a *cis*-acting regulatory RNA, modulating the expression or chromatin state of the adjacent *PAXIP1* gene. Such a regulatory role could be critical during the differentiation and functional maturation of the neuronal and hematopoietic cell types in which it is highly expressed. ## Research Directions The specific expression patterns of **[PAXIP1 DT](/details-gene/202781)** in progenitor and terminally differentiated cells raise several interesting questions about its role in development and disease. **Proposed Hypotheses:** 1. **[PAXIP1 DT](/details-gene/202781)** acts as a *cis*-regulatory lncRNA that directly controls the transcription of the neighboring *PAXIP1* gene. Its expression is required to establish the appropriate levels of *PAXIP1* needed for DNA integrity and lineage fidelity during the differentiation of [neural progenitor cell](/details-cell/CL0011020)s and [hematopoietic precursor cell](/details-cell/CL0008001)s. 2. The high expression of **[PAXIP1 DT](/details-gene/202781)** in terminally differentiated [GABAergic neuron](/details-cell/CL0000617)s suggests a role beyond development, where it may be involved in maintaining the mature cellular state or regulating neuronal activity-dependent gene expression. **Experimental Approach:** To test the hypothesis that **[PAXIP1 DT](/details-gene/202781)** regulates *PAXIP1* expression (Hypothesis 1), one could employ CRISPR interference (CRISPRi) to specifically repress the **[PAXIP1 DT](/details-gene/202781)** promoter in cultured human [hematopoietic stem cell](/details-cell/CL0000037)s. The resulting changes in the expression of *PAXIP1* mRNA and protein could be measured by RT-qPCR and Western blot, respectively. A parallel experiment using CRISPR activation (CRISPRa) to overexpress **[PAXIP1 DT](/details-gene/202781)** would further clarify the nature of the regulatory relationship (i.e., whether it is activating or repressive). **Therapeutic Potential:** As a non-coding RNA, **[PAXIP1 DT](/details-gene/202781)** is a challenging but potentially valuable therapeutic target. If its dysregulation is implicated in neurodevelopmental disorders or hematological malignancies characterized by genomic instability, it could be targeted for inhibition using nucleic acid-based therapies such as antisense oligonucleotides (ASOs) or small interfering RNAs (siRNAs). Such a strategy would aim to modulate its regulatory function, thereby restoring normal expression of its target genes and cellular homeostasis.