Details for: RANBP3L

Gene ID: 202151

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: RANBP3L

Ensembl ID: ENSG00000164188

Description: RAN binding protein 3 like

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

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

  • astrocyte of the cerebral cortex CL0002605
    CSI 21.56
    rCSI 48.34%
    PRS 79.04
  • kidney loop of Henle thin ascending limb epithelial cell CL1001107
    CSI 13.57
    rCSI 35.07%
    PRS 88.39
  • kidney interstitial alternatively activated macrophage CL1000695
    CSI 10.72
    rCSI 27.94%
    PRS 92.25
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 9.57
    rCSI 11.9%
    PRS 76.53
  • glioblast CL0000030
    CSI 9.04
    rCSI 14.42%
    PRS 83.86
  • Mueller cell CL0000636
    CSI 7.84
    rCSI 17.89%
    PRS 84.8
  • chondrocyte CL0000138
    CSI 7.3
    rCSI 11.61%
    PRS 86.53
  • kidney loop of Henle thin descending limb epithelial cell CL1001111
    CSI 5.52
    rCSI 7.83%
    PRS 88.91
  • mature astrocyte CL0002627
    CSI 5.41
    rCSI 22.99%
    PRS 84.41
  • ependymal cell CL0000065
    CSI 4.67
    rCSI 9.48%
    PRS 74.1
  • vascular leptomeningeal cell CL4023051
    CSI 4.62
    rCSI 8.09%
    PRS 87.61
  • alveolar type 1 fibroblast cell CL4028004
    CSI 4.45
    rCSI 4.87%
    PRS 92.39
  • blood vessel smooth muscle cell CL0019018
    CSI 4.18
    rCSI 33.99%
    PRS 88.47
  • endocardial cell CL0002350
    CSI 4.01
    rCSI 19.22%
    PRS 87.43
  • kidney interstitial fibroblast CL1000692
    CSI 3.56
    rCSI 18.93%
    PRS 84.48
  • renal interstitial pericyte CL1001318
    CSI 3.04
    rCSI 8.37%
    PRS 88.4
  • adipocyte CL0000136
    CSI 2.84
    rCSI 3.64%
    PRS 83.23
  • neural progenitor cell CL0011020
    CSI 2.83
    rCSI 12.43%
    PRS 80.75
  • choroid plexus epithelial cell CL0000706
    CSI 2.43
    rCSI 3.98%
    PRS 84.39
  • renal beta-intercalated cell CL0002201
    CSI 1.87
    rCSI 4.45%
    PRS 91.07
  • glial cell CL0000125
    CSI 1.75
    rCSI 6.68%
    PRS 84.79
  • Bergmann glial cell CL0000644
    CSI 1.66
    rCSI 2.27%
    PRS 83.83
  • kidney collecting duct principal cell CL1001431
    CSI 1.51
    rCSI 7.61%
    PRS 86.48
  • microcirculation associated smooth muscle cell CL0008035
    CSI 1.4
    rCSI 4.06%
    PRS 90.33
  • kidney loop of Henle thick ascending limb epithelial cell CL1001106
    CSI 1.34
    rCSI 11.59%
    PRS 85.76
  • kidney distal convoluted tubule epithelial cell CL1000849
    CSI 0.76
    rCSI 8.02%
    PRS 87.2

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.

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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 [RANBP3L](/details-gene/202151) (RAN binding protein 3 like) is a protein-coding gene located on chromosome 5p13.2. It functions primarily in the regulation of protein export from the nucleus, acting as a GTPase activator and binding partner for Smad proteins. A key publication suggests that [RANBP3L](/details-gene/202151) modulates Bone Morphogenetic Protein (BMP) signaling by controlling the nuclear export of Smads, thereby influencing mesenchymal stem cell differentiation ([Link](https://doi.org/10.1128/mcb.00121-15)). **Overall**, expression data reveals its highest significance in specialized cell types within the central nervous system, such as [astrocyte of the cerebral cortex](/details-cell/CL0002605), and in specific epithelial cells of the kidney, like the [kidney loop of Henle thin ascending limb epithelial cell](/details-cell/CL1001107), highlighting its role in maintaining distinct cellular functions in these tissues. ## Cellular Roles and Expression Landscape The expression profile of [RANBP3L](/details-gene/202151) points to significant roles in diverse and functionally specialized cell populations across multiple organ systems. **Overall**, its most prominent expression is observed in the central nervous system. It is a highly significant marker for glial cells, including [astrocyte of the cerebral cortex](/details-cell/CL0002605) (CSI: 21.56), [Mueller cell](/details-cell/CL0000636) (CSI: 7.84), and [ependymal cell](/details-cell/CL0000065) (CSI: 4.67), as well as a specific inhibitory neuron subtype, the [pvalb GABAergic cortical interneuron](/details-cell/CL4023018) (CSI: 9.57). This suggests a role in maintaining glial homeostasis and regulating neuronal function. Beyond the CNS, [RANBP3L](/details-gene/202151) shows a distinct and high CSI score in the kidney, particularly in epithelial cells of the nephron's loop of Henle, such as [kidney loop of Henle thin ascending limb epithelial cell](/details-cell/CL1001107) (CSI: 13.57) and [kidney loop of Henle thin descending limb epithelial cell](/details-cell/CL1001111) (CSI: 5.52). Its expression is also notable in mesenchymal and stromal cell types, including [chondrocyte](/details-cell/CL0000138) (CSI: 7.30), [alveolar type 1 fibroblast cell](/details-cell/CL4028004) (CSI: 4.45), and [blood vessel smooth muscle cell](/details-cell/CL0019018) (CSI: 4.18), which is consistent with its documented role in mesenchymal differentiation. Furthermore, its significant expression in pathological cell types like [glioblast](/details-cell/CL0000030) (CSI: 9.04) suggests a potential involvement in cancer biology. ## Pathways and Molecular Function Functionally, [RANBP3L](/details-gene/202151) is annotated with core molecular activities related to intracellular transport and signaling. It is localized to the [cytoplasm](/details-go/GO:0005737) and the [nuclear pore](/details-go/GO:0005643), where it participates in [protein export from nucleus](/details-go/GO:0006611). This is mediated through its [Gtpase activator activity](/details-go/GO:0005096) and its ability to bind other proteins ([GO:0005515](https://www.ebi.ac.uk/QuickGO/term/GO:0005515)). A critical function of [RANBP3L](/details-gene/202151) is its interaction with Smad proteins ([GO:0046332](https://www.ebi.ac.uk/QuickGO/term/GO:0046332)). Research has demonstrated that by facilitating the nuclear export of Smad1/5/8, [RANBP3L](/details-gene/202151) acts as a negative regulator of BMP signaling ([Link](https://doi.org/10.1128/mcb.00121-15)). This mechanism directly links its molecular function to its observed roles in developmental processes. Specifically, it is involved in the [negative regulation of osteoblast differentiation](/details-go/GO:0045668), [mesenchymal cell differentiation involved in bone development](/details-go/GO:1901706), and the [positive regulation of myoblast differentiation](/details-go/GO:0045663). This regulatory role in differentiation is consistent with its significant expression in cell types like [chondrocytes](/details-cell/CL0000138) and various fibroblasts. ## Research Directions The expression pattern and functional annotation of [RANBP3L](/details-gene/202151) suggest it plays a critical role in cellular specialization and disease. The following hypotheses could guide future investigation: 1. **Hypothesis 1:** Given its exceptionally high CSI in [astrocytes](/details-cell/CL0002605) and its function as a negative regulator of BMP signaling, [RANBP3L](/details-gene/202151) may be a critical factor in modulating astrocyte reactivity and glial scar formation following central nervous system injury, a process where BMP signaling is known to be a key inhibitor of axonal regeneration. 2. **Hypothesis 2:** The high expression of [RANBP3L](/details-gene/202151) in [glioblast](/details-cell/CL0000030) cells, coupled with its role in governing mesenchymal differentiation pathways, suggests that its dysregulation could contribute to the epithelial-to-mesenchymal-like transition that characterizes highly aggressive and invasive glioblastoma subtypes. 3. **Hypothesis 3:** In the kidney, the specific and high expression of [RANBP3L](/details-gene/202151) in cells of the loop of Henle suggests it regulates the nuclear transport of transcription factors essential for maintaining the ion and water transport machinery unique to this segment of the nephron. ### Proposed Experimental Approach To test Hypothesis 2, one could utilize CRISPR-Cas9 to knock out [RANBP3L](/details-gene/202151) in patient-derived glioblastoma cell lines known to exhibit mesenchymal features. The consequences of its depletion could be assessed by a combination of RNA-sequencing to identify global transcriptomic changes in mesenchymal and stemness-related gene sets, and functional assays such as transwell migration and Matrigel invasion assays to measure changes in cell motility and invasive potential. ### Therapeutic Potential The significant expression of [RANBP3L](/details-gene/202151) in [glioblast](/details-cell/CL0000030) makes it a potential therapeutic target. As an intracellular protein involved in nuclear transport, it is not readily targetable by antibodies but could be amenable to small molecule inhibitors designed to disrupt its interaction with key binding partners like Smads or components of the nuclear pore complex. **Inhibition** of [RANBP3L](/details-gene/202151) function could potentially revert the mesenchymal phenotype of glioblastoma cells, thereby reducing their invasiveness and sensitizing them to conventional therapies.

Genular Protein ID: 1532337755

Symbol: RNB3L_HUMAN

Name: Ran-binding protein 3-like

UniProtKB Accession Codes:

Q86VV4 B7Z866 E9PGP9 Q96LK2

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 2 CDD 1 CTD 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 7 Ensembl 3 ExpressionAtlas 1 GO 7 Gene3D 1 GeneCards 1 GeneTree 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 3 KEGG 1 MANE-Select 1 MIM 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PRO 1 PROSITE 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 3 RNAct 1 RefSeq 10 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 neXtProt 1

Citations:

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15372022

Title: The DNA sequence and comparative analysis of human chromosome 5.

PubMed ID: 15372022

DOI: 10.1038/nature02919

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 25755279

Title: Nuclear export of Smads by RanBP3L regulates bone morphogenetic protein signaling and mesenchymal stem cell differentiation.

PubMed ID: 25755279

DOI: 10.1128/mcb.00121-15

Sequence Information:

  • Length: 465
  • Mass: 52211
  • Checksum: 3A47BE51C1D34A64
  • Sequence:
    • MTTIPRKGSS HLPGSLHTCK LKLQEDRRQQ EKSVIAQPIF VFEKGEQTFK RPAEDTLYEA 
AEPECNGFPT KRVRSSSFTF HITDSQSQGV RKNNVFMTSA LVQSSVDIKS AEQGPVKHSK 
HVIRPAILQL PQARSCAKVR KTFGHKALES CKTKEKTNNK ISEGNSYLLS ENLSRARISV 
QLSTNQDFLG ATSVGCQPNE DKCSFKSCSS NFVFGENMVE RVLGTQKLTQ PQLENDSYAK 
EKPFKSIPKF PVNFLSSRTD SIKNTSLIES AAAFSSQPSR KCLLEKIDVI TGEETEHNVL 
KINCKLFIFN KTTQSWIERG RGTLRLNDTA STDCGTLQSR LIMRNQGSLR LILNSKLWAQ 
MKIQRANHKN VRITATDLED YSIKIFLIQA SAQDTAYLYA AIHHRLVALQ SFNKQRDVNQ 
AESLSETAQQ LNCESCDENE DDFIQVTKNG SDPSSWTHRQ SVACS