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    Sema4c sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C [ Mus musculus (house mouse) ]

    Gene ID: 20353, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Sema4cprovided by MGI
    Official Full Name
    sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4Cprovided by MGI
    Primary source
    MGI:MGI:109252
    See related
    Ensembl:ENSMUSG00000026121 AllianceGenome:MGI:109252
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Semaf; Semai; sema I; Semacl1; M-Sema F
    Summary
    This gene encodes a member of the semaphorin family of proteins that have diverse functions in neuronal development, heart morphogenesis, vascular growth, tumor progression and immune cell regulation. Lack of the encoded protein in some mice causes exencephaly resulting in neonatal lethality. Mice that bypass exencephaly show no obvious behavioral defects but display distinct pigmentation defects. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Jan 2015]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 14.0), CNS E14 (RPKM 13.4) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    1 B; 1 15.32 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (36587720..36599780, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (36548639..36560699, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr1:36568490-36568791 Neighboring gene cyclin M3 Neighboring gene ankyrin repeat domain 23 Neighboring gene STARR-positive B cell enhancer ABC_E320 Neighboring gene ankyrin repeat domain 39 Neighboring gene family with sequence similarity 178, member B Neighboring gene STARR-seq mESC enhancer starr_00646 Neighboring gene cytochrome c oxidase subunit 5B

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Semaphorin 4C regulates ovarian steroidogenesis through RHOA/ROCK1-mediated actin cytoskeleton rearrangement. Chen D, et al. Mol Hum Reprod, 2023 Apr 29. PMID 36892447
    2. The impact of Semaphorin 4C/Plexin-B2 signaling on fear memory via remodeling of neuronal and synaptic morphology. Simonetti M, et al. Mol Psychiatry, 2021 Apr. PMID 31444474, Free PMC Article
    3. Semaphorin 4C Plexin-B2 signaling in peripheral sensory neurons is pronociceptive in a model of inflammatory pain. Paldy E, et al. Nat Commun, 2017 Aug 2. PMID 28765520, Free PMC Article
    4. Semaphorin 4C Protects against Allergic Inflammation: Requirement of Regulatory CD138+ Plasma Cells. Xue D, et al. J Immunol, 2017 Jan 1. PMID 27881703
    5. Sema4C expression in neural stem/progenitor cells and in adult neurogenesis induced by cerebral ischemia. Wu H, et al. J Mol Neurosci, 2009 Sep. PMID 19189244

    See all (51) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Semaphorin 4C regulates ovarian steroidogenesis through RHOA/ROCK1-mediated actin cytoskeleton rearrangement.
      Title: Semaphorin 4C regulates ovarian steroidogenesis through RHOA/ROCK1-mediated actin cytoskeleton rearrangement.
    2. The impact of Semaphorin 4C/Plexin-B2 signaling on fear memory via remodeling of neuronal and synaptic morphology.
      Title: The impact of Semaphorin 4C/Plexin-B2 signaling on fear memory via remodeling of neuronal and synaptic morphology.
    3. Follicular T helper cells use Semaphorin 4C as a guidance receptor to sense germinal center-expressed Plexin B2.
      Title: Plexin B2 and Semaphorin 4C Guide T Cell Recruitment and Function in the Germinal Center.
    4. we demonstrate that Sema4C is critical for optimal regulatory cytokine production in CD138(+) B cells.
      Title: Semaphorin 4C Protects against Allergic Inflammation: Requirement of Regulatory CD138+ Plasma Cells.
    5. Sema4C-Plexin B2 signalling regulates ureteric branching
      Title: Sema4C-Plexin B2 signalling modulates ureteric branching in developing kidney.
    6. We have identified here Sema4C and Sema4G as candidate ligands for Plexin-B2
      Title: Semaphorin 4C and 4G are ligands of Plexin-B2 required in cerebellar development.
    7. Plexin-B2 and Sema4C are potential regulators of the vascular and endocrine system.
      Title: A systematic expression analysis implicates Plexin-B2 and its ligand Sema4C in the regulation of the vascular and endocrine system.
    8. Results suggest a putative role of Sema4C during neurogenesis both in vivo and in vitro.
      Title: Sema4C expression in neural stem/progenitor cells and in adult neurogenesis induced by cerebral ischemia.
    9. Sema4C promotes terminal myogenic differentiation in a p38 MAPK-dependent manner.
      Title: Sema4C participates in myogenic differentiation in vivo and in vitro through the p38 MAPK pathway.
    10. Sema4C-mediated interaction among myoblasts plays an important role in terminal myogenic differentiation
      Title: Requirement of the transmembrane semaphorin Sema4C for myogenic differentiation.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2)  1 citation
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chemorepellent activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables semaphorin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cell migration in hindbrain IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cerebellum development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in muscle cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neural crest cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neural tube closure IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of stress-activated MAPK cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynapse assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of postsynapse assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in semaphorin-plexin signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in semaphorin-plexin signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in postsynaptic density IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in synaptic vesicle membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in synaptic vesicle membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    semaphorin-4C
    Names
    semaphorin I
    semaphorin-C-like 1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001126047.3 → NP_001119519.1  semaphorin-4C precursor

      See identical proteins and their annotated locations for NP_001119519.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      AC084391, AK148298, BY166322
      Consensus CDS
      CCDS48240.1
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000110643.2, ENSMUST00000114991.8
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    2. NM_001304329.1 → NP_001291258.1  semaphorin-4C precursor

      See identical proteins and their annotated locations for NP_001291258.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an exon and uses an alternate splice site in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      AC084391, AK148298
      Consensus CDS
      CCDS48240.1
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000141527.2, ENSMUST00000195620.6
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    3. NM_001304330.1 → NP_001291259.1  semaphorin-4C precursor

      See identical proteins and their annotated locations for NP_001291259.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      AC084391, AK148298
      Consensus CDS
      CCDS48240.1
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000142284.2, ENSMUST00000191642.6
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      36587720..36599780 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036162916.1 → XP_036018809.1  semaphorin-4C isoform X2

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    2. XM_006495805.3 → XP_006495868.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_006495868.1

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000141263.2, ENSMUST00000191677.6
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    3. XM_017319410.2 → XP_017174899.1  semaphorin-4C isoform X3

      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      smart00423
      Location:358 → 387
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:430 → 438
      Ig; Ig strand B [structural motif]
      cl11960
      Location:423 → 507
      Ig; Immunoglobulin domain
      cl15693
      Location:1 → 357
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

    4. XM_036162919.1 → XP_036018812.1  semaphorin-4C isoform X3

      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      smart00423
      Location:358 → 387
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:430 → 438
      Ig; Ig strand B [structural motif]
      cl11960
      Location:423 → 507
      Ig; Immunoglobulin domain
      cl15693
      Location:1 → 357
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

    5. XM_006495808.3 → XP_006495871.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_006495871.1

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    6. XM_030252338.1 → XP_030108198.1  semaphorin-4C isoform X2

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    7. XM_006495804.3 → XP_006495867.1  semaphorin-4C isoform X1

      Conserved Domains (3) summary
      cd11258
      Location:151 → 607
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:608 → 637
      PSI; domain found in Plexins, Semaphorins and Integrins
      cl11960
      Location:673 → 757
      Ig; Immunoglobulin domain

    8. XM_006495807.1 → XP_006495870.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_006495870.1

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    9. XM_006495810.5 → XP_006495873.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_006495873.1

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    10. XM_006495809.5 → XP_006495872.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_006495872.1

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain

    11. XM_036162917.1 → XP_036018810.1  semaphorin-4C isoform X2

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42 → 498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499 → 528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571 → 579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564 → 648
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q64151.1 GenPept UniProtKB/Swiss-Prot:Q64151

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