Details for: RGMB

Gene ID: 285704

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: RGMB

Ensembl ID: ENSG00000174136

Description: repulsive guidance molecule BMP co-receptor b

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

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

  • myoepithelial cell CL0000185
    CSI 9.85
    rCSI 24.93%
    PRS 95.25
  • peripheral nervous system neuron CL2000032
    CSI 9.59
    rCSI 13.06%
    PRS 88.67
  • paneth cell of epithelium of small intestine CL1000343
    CSI 7.58
    rCSI 21.25%
    PRS 95.45
  • intestinal crypt stem cell of small intestine CL0009017
    CSI 7.2
    rCSI 19.4%
    PRS 95.04
  • interneuron CL0000099
    CSI 5.97
    rCSI 11.99%
    PRS 89.39
  • astrocyte of the cerebral cortex CL0002605
    CSI 5.88
    rCSI 13.19%
    PRS 84.46
  • neuroblast (sensu Vertebrata) CL0000031
    CSI 5.41
    rCSI 6.94%
    PRS 90.58
  • melanocyte CL0000148
    CSI 4.39
    rCSI 3.25%
    PRS 91.47
  • VIP GABAergic cortical interneuron CL4023016
    CSI 4.36
    rCSI 5.21%
    PRS 84.22
  • vascular associated smooth muscle cell CL0000359
    CSI 4.32
    rCSI 14.01%
    PRS 92.43
  • sncg GABAergic cortical interneuron CL4023015
    CSI 3.98
    rCSI 6.41%
    PRS 85.25
  • goblet cell CL0000160
    CSI 3.82
    rCSI 3.61%
    PRS 91.85
  • epithelial cell of lower respiratory tract CL0002632
    CSI 3.42
    rCSI 2.65%
    PRS 95.63
  • multi-ciliated epithelial cell CL0005012
    CSI 3.37
    rCSI 3.36%
    PRS 89.09
  • intestine goblet cell CL0019031
    CSI 2.98
    rCSI 2.65%
    PRS 91.9
  • neural crest cell CL0011012
    CSI 2.92
    rCSI 2.31%
    PRS 88.71
  • differentiation-committed oligodendrocyte precursor CL4023059
    CSI 2.83
    rCSI 5.14%
    PRS 88.97
  • transit amplifying cell of colon CL0009011
    CSI 2.54
    rCSI 2.99%
    PRS 93.8
  • cerebral cortex GABAergic interneuron CL0010011
    CSI 2.34
    rCSI 6.91%
    PRS 93.41
  • paneth cell CL0000510
    CSI 2.3
    rCSI 3.4%
    PRS 96.97
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 2.3
    rCSI 2.86%
    PRS 82.11
  • neuroblast (sensu Nematoda and Protostomia) CL0000338
    CSI 2.3
    rCSI 2.66%
    PRS 87.56
  • mucous neck cell CL0000651
    CSI 2.27
    rCSI 3.26%
    PRS 95.74
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 2.14
    rCSI 3.79%
    PRS 83.68
  • colon goblet cell CL0009039
    CSI 2.08
    rCSI 4.95%
    PRS 94.7
  • Schwann cell CL0002573
    CSI 2.07
    rCSI 5.9%
    PRS 90.87
  • inhibitory interneuron CL0000498
    CSI 2.01
    rCSI 4.64%
    PRS 86.9
  • intestinal epithelial cell CL0002563
    CSI 1.95
    rCSI 2.04%
    PRS 91.9
  • enteric smooth muscle cell CL0002504
    CSI 1.94
    rCSI 2.77%
    PRS 93.67
  • sst GABAergic cortical interneuron CL4023017
    CSI 1.83
    rCSI 2.36%
    PRS 85.16
  • cardiac neuron CL0010022
    CSI 1.58
    rCSI 5.06%
    PRS 92.85
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 1.29
    rCSI 2.16%
    PRS 84.33
  • GABAergic neuron CL0000617
    CSI 1.22
    rCSI 4.09%
    PRS 83.01
  • glial cell CL0000125
    CSI 1.19
    rCSI 4.54%
    PRS 88.46
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 0.99
    rCSI 2.41%
    PRS 82.11
  • intestinal crypt stem cell of colon CL0009043
    CSI 0.86
    rCSI 6.49%
    PRS 96.55
  • enterocyte of epithelium of large intestine CL0002071
    CSI 0.8
    rCSI 4.22%
    PRS 94.8
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 0.77
    rCSI 2.4%
    PRS 86.95
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 0.73
    rCSI 2.77%
    PRS 84.36
  • L6b glutamatergic cortical neuron CL4023038
    CSI 0.7
    rCSI 2.2%
    PRS 85.17
  • enteric neuron CL0007011
    CSI 0.58
    rCSI 8.65%
    PRS 93.96
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 0.54
    rCSI 1.93%
    PRS 82.41
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 0.36
    rCSI 2.15%
    PRS 84.54

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 Repulsive guidance molecule BMP co-receptor b, encoded by the gene [RGMB](/details-gene/285704), is a membrane-associated protein that functions as a co-receptor in both the Bone Morphogenetic Protein (BMP) signaling pathway and axon guidance pathways. **Overall**, it exhibits a distinct expression pattern, with high significance in a diverse set of cell types including [myoepithelial cells](/details-cell/CL0000185), various neurons of the peripheral and central nervous systems, and specialized epithelial and stem cells of the intestine. Its function is primarily linked to developmental processes, cell adhesion, and the regulation of cell growth and differentiation, particularly in the context of nervous system development and tissue homeostasis. ## Cellular Roles and Expression Landscape The expression profile of [RGMB](/details-gene/285704) highlights its multifaceted role across different tissues. Its highest significance is observed in [myoepithelial cells](/details-cell/CL0000185) (CSI: 9.85), suggesting a crucial function in the structure and function of glandular epithelia. A prominent role in the nervous system is strongly supported by its high significance in [peripheral nervous system neurons](/details-cell/CL2000032) (CSI: 9.59), [interneurons](/details-cell/CL0000099), [neuroblasts (sensu Vertebrata)](/details-cell/CL0000031), and [astrocytes of the cerebral cortex](/details-cell/CL0002605). This is consistent with its established function as a repulsive guidance cue that inhibits neurite growth, a role that may be particularly relevant after neural injury [Link](https://doi.org/10.1016/j.bbrc.2009.03.115). Interestingly, [RGMB](/details-gene/285704) is also a key gene in the intestinal epithelium, showing high significance in both [paneth cells of epithelium of small intestine](/details-cell/CL1000343) and [intestinal crypt stem cells of small intestine](/details-cell/CL0009017). This pattern suggests its involvement in maintaining the intestinal stem cell niche, potentially by modulating BMP signaling to regulate the balance between stem cell self-renewal and differentiation into secretory lineages like Paneth and [goblet cells](/details-cell/CL0000160). The gene's expression in other epithelial cell types, such as [epithelial cell of lower respiratory tract](/details-cell/CL0002632), further points to a broad role in epithelial biology. ## Pathways and Molecular Function Functionally, [RGMB](/details-gene/285704) is annotated as a co-receptor ([GO:0015026](https://www.ebi.ac.uk/QuickGO/term/GO:0015026)) localized to the [plasma membrane](/details-cell/GO:0005886), often within [membrane rafts](/details-cell/GO:0045121). Its primary molecular activities are centered on protein-protein interactions and signaling modulation. The gene's role in the nervous system is directly linked to its participation in [Axon guidance (R-HSA-422475)](https://reactome.org/content/detail/R-HSA-422475) and [Nervous system development (R-HSA-9675108)](https://reactome.org/content/detail/R-HSA-9675108). It exerts its function by binding to its receptor, Neogenin, forming a signaling hub that mediates repulsive cues to developing axons [Link](https://doi.org/10.1126/science.1232322). Beyond the nervous system, its involvement in the [Bmp signaling pathway (GO:0030509)](https://www.ebi.ac.uk/QuickGO/term/GO:0030509) is likely central to its function in other tissues. By acting as a BMP co-receptor, [RGMB](/details-gene/285704) can enhance or modulate BMP signals, which are critical for a vast array of developmental and homeostatic processes. This function, along with its role in [Cell adhesion (GO:0007155)](https://www.ebi.ac.uk/QuickGO/term/GO:0007155), likely underpins its significance in the highly organized structures of intestinal crypts and myoepithelial layers. ## Research Directions The diverse expression pattern of [RGMB](/details-gene/285704) across neuronal, epithelial, and stem cell populations suggests multiple avenues for future research, particularly in the contexts of neural repair and intestinal biology. Based on the available data, several testable hypotheses can be proposed: 1. **Hypothesis 1:** Given that [RGMB](/details-gene/285704) expression is increased after spinal cord injury and inhibits neurite outgrowth [Link](https://doi.org/10.1016/j.bbrc.2009.03.115), its upregulation in reactive [astrocytes of the cerebral cortex](/details-cell/CL0002605) following CNS trauma contributes to the formation of the inhibitory glial scar, preventing successful axonal regeneration. 2. **Hypothesis 2:** In the gut, [RGMB](/details-gene/285704) produced by [paneth cells of epithelium of small intestine](/details-cell/CL1000343) and [intestinal crypt stem cells of small intestine](/details-cell/CL0009017) acts as a critical modulator of the BMP signaling gradient within the intestinal crypt, thereby controlling stem cell proliferation and lineage commitment. 3. **Hypothesis 3:** The high significance of [RGMB](/details-gene/285704) in [myoepithelial cells](/details-cell/CL0000185) indicates that it is essential for maintaining the integrity of the basement membrane and mediating cell-cell adhesion, playing a role in the suppression of epithelial-to-mesenchymal transition and cancer cell invasion in glandular tissues like the breast. A key experiment to test the second hypothesis would involve the use of intestinal organoid cultures derived from mice with a conditional knockout of *Rgmb*. By specifically deleting *Rgmb* in either intestinal stem cells (e.g., Lgr5-CreERT2) or Paneth cells, one could use single-cell RNA sequencing to assess changes in stem cell and progenitor populations and perform functional assays to measure shifts in proliferation and differentiation rates in response to BMP pathway agonists and antagonists. **Therapeutic Potential:** [RGMB](/details-gene/285704) represents a compelling therapeutic target, primarily for conditions involving failed neural regeneration. Because it is an extracellular, membrane-associated protein that actively inhibits neurite growth, **inhibition** is the clear therapeutic strategy. Developing function-blocking monoclonal antibodies or small molecule inhibitors that disrupt the RGMB-Neogenin interaction could be a promising approach to neutralize its inhibitory effects after spinal cord injury or stroke, potentially promoting a more permissive environment for axonal repair.

Genular Protein ID: 2881823674

Symbol: RGMB_HUMAN

Name: N/A

UniProtKB Accession Codes:

Q6NW40 D6R9A0 Q8NC92

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CTD 1 ChiTaRS 1 DIP 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 3 EMDB 1 Ensembl 1 EvolutionaryTrace 1 ExpressionAtlas 1 GO 10 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 GlyCosmos 1 GlyGen 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 OpenTargets 1 PANTHER 2 PDB 9 PDBsum 9 PRO 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 RNAct 1 Reactome 1 RefSeq 1 SMR 1 STRING 1 SignaLink 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: 19324014

Title: Repulsive guidance molecule b inhibits neurite growth and is increased after spinal cord injury.

PubMed ID: 19324014

DOI: 10.1016/j.bbrc.2009.03.115

PubMed ID: 23744777

Title: Structure of the repulsive guidance molecule (RGM)-neogenin signaling hub.

PubMed ID: 23744777

DOI: 10.1126/science.1232322

Sequence Information:

  • Length: 437
  • Mass: 47547
  • Checksum: 48C26166E68DCE5F
  • Sequence:
    • MGLRAAPSSA AAAAAEVEQR RSPGLCPPPL ELLLLLLFSL GLLHAGDCQQ PAQCRIQKCT 
TDFVSLTSHL NSAVDGFDSE FCKALRAYAG CTQRTSKACR GNLVYHSAVL GISDLMSQRN 
CSKDGPTSST NPEVTHDPCN YHSHAGAREH RRGDQNPPSY LFCGLFGDPH LRTFKDNFQT 
CKVEGAWPLI DNNYLSVQVT NVPVVPGSSA TATNKITIIF KAHHECTDQK VYQAVTDDLP 
AAFVDGTTSG GDSDAKSLRI VERESGHYVE MHARYIGTTV FVRQVGRYLT LAIRMPEDLA 
MSYEESQDLQ LCVNGCPLSE RIDDGQGQVS AILGHSLPRT SLVQAWPGYT LETANTQCHE 
KMPVKDIYFQ SCVFDLLTTG DANFTAAAHS ALEDVEALHP RKERWHIFPS SGNGTPRGGS 
DLSVSLGLTC LILIVFL

Genular Protein ID: 3148914483

Symbol: J3KNF6_HUMAN

Name: N/A

UniProtKB Accession Codes:

J3KNF6

Database IDs:

ARBA 10 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID-ORCS 1 CTD 1 ChiTaRS 1 DNASU 1 DisGeNET 1 EMBL 1 Ensembl 2 ExpressionAtlas 1 GO 2 Gene3D 1 GeneTree 1 HGNC 1 InterPro 3 KEGG 1 MassIVE 1 NCBI Taxonomy 1 OrthoDB 1 PANTHER 2 PeptideAtlas 2 Pfam 4 PhylomeDB 1 Proteomes 2 ProteomicsDB 1 RefSeq 4 SAM 1 SMR 1 TreeFam 1 UCSC 1 VEuPathDB 1

Citations:

PubMed ID: 11237011

Title: Initial sequencing and analysis of the human genome.

PubMed ID: 11237011

DOI: 10.1038/35057062

PubMed ID: 15372022

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

PubMed ID: 15372022

DOI: 10.1038/nature02919

PubMed ID: 15496913

Title: Finishing the euchromatic sequence of the human genome.

PubMed ID: 15496913

DOI: 10.1038/nature03001

Sequence Information:

  • Length: 478
  • Mass: 51925
  • Checksum: F1839BCBC15750AC
  • Sequence:
    • MIRKKRKRSA PPGPCRSHGP RPATAPAPPP SPEPTRPAWT GMGLRAAPSS AAAAAAEVEQ 
RRSPGLCPPP LELLLLLLFS LGLLHAGDCQ QPAQCRIQKC TTDFVSLTSH LNSAVDGFDS 
EFCKALRAYA GCTQRTSKAC RGNLVYHSAV LGISDLMSQR NCSKDGPTSS TNPEVTHDPC 
NYHSHAGARE HRRGDQNPPS YLFCGLFGDP HLRTFKDNFQ TCKVEGAWPL IDNNYLSVQV 
TNVPVVPGSS ATATNKITII FKAHHECTDQ KVYQAVTDDL PAAFVDGTTS GGDSDAKSLR 
IVERESGHYV EMHARYIGTT VFVRQVGRYL TLAIRMPEDL AMSYEESQDL QLCVNGCPLS 
ERIDDGQGQV SAILGHSLPR TSLVQAWPGY TLETANTQCH EKMPVKDIYF QSCVFDLLTT 
GDANFTAAAH SALEDVEALH PRKERWHIFP SSGNGTPRGG SDLSVSLGLT CLILIVFL