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    Sema4c semaphorin 4C [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301346, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sema4cprovided by RGD
    Official Full Name
    semaphorin 4Cprovided by RGD
    Primary source
    RGD:1562837
    See related
    EnsemblRapid:ENSRNOG00000016254 AllianceGenome:RGD:1562837
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1562837
    Summary
    Predicted to enable chemorepellent activity; neuropilin binding activity; and semaphorin receptor binding activity. Predicted to be involved in several processes, including nervous system development; positive regulation of stress-activated MAPK cascade; and regulation of postsynapse assembly. Predicted to be located in postsynaptic density. Predicted to be active in glutamatergic synapse; postsynaptic density membrane; and synaptic vesicle membrane. Orthologous to human SEMA4C (semaphorin 4C). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 11.9), Heart (RPKM 11.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sema4c in Genome Data Viewer
    Location:
    9q21
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (46287540..46298041, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (38791668..38802171, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (43129413..43140442, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene ankyrin repeat domain 23 Neighboring gene ankyrin repeat domain 39 Neighboring gene family with sequence similarity 178, member B Neighboring gene uncharacterized LOC120094668

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Cleavage of semaphorin 4 C interferes with the neuroprotective effect of the semaphorin 4 C/Plexin B2 pathway on experimental intracerebral hemorrhage in rats. Li D, et al. J Chem Neuroanat, 2023 Oct. PMID 37482144
    2. 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
    3. Requirement of the transmembrane semaphorin Sema4C for myogenic differentiation. Ko JA, et al. FEBS Lett, 2005 Apr 11. PMID 15811348
    4. Sema4C participates in myogenic differentiation in vivo and in vitro through the p38 MAPK pathway. Wu H, et al. Eur J Cell Biol, 2007 Jun. PMID 17498836
    5. Sema4c, a transmembrane semaphorin, interacts with a post-synaptic density protein, PSD-95. Inagaki S, et al. J Biol Chem, 2001 Mar 23. PMID 11134026

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Cleavage of semaphorin 4 C interferes with the neuroprotective effect of the semaphorin 4 C/Plexin B2 pathway on experimental intracerebral hemorrhage in rats.
      Title: Cleavage of semaphorin 4 C interferes with the neuroprotective effect of the semaphorin 4 C/Plexin B2 pathway on experimental intracerebral hemorrhage in rats.
    2. 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.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables chemorepellent activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables neuropilin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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
    		  
    involved_in cell migration in hindbrain ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cerebellum development ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    		  
    involved_in neural crest cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neural tube closure ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 plasma membrane bounded cell projection organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of postsynapse assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in semaphorin-plexin signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in semaphorin-plexin signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in postsynaptic density ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in synaptic vesicle membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in synaptic vesicle membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    semaphorin-4C
    Names
    sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C

    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_001106902.2 → NP_001100372.1  semaphorin-4C

      See identical proteins and their annotated locations for NP_001100372.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3
      Related
      ENSRNOP00000021956.4, ENSRNOT00000021956.8
      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_001432621.1 → NP_001419550.1  semaphorin-4C

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3

    3. NM_001432622.1 → NP_001419551.1  semaphorin-4C

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      46287540..46298041 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008766996.4 → XP_008765218.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_008765218.1

      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3
      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_017596339.3 → XP_017451828.1  semaphorin-4C isoform X2

      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3
      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_006244759.5 → XP_006244821.1  semaphorin-4C isoform X2

      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

    4. XM_008766995.4 → XP_008765217.1  semaphorin-4C isoform X2

      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

    5. XM_039083221.2 → XP_038939149.1  semaphorin-4C isoform X2

      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_006244760.5 → XP_006244822.1  semaphorin-4C isoform X2

      See identical proteins and their annotated locations for XP_006244822.1

      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3
      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_039083220.2 → XP_038939148.1  semaphorin-4C isoform X2

      UniProtKB/TrEMBL
      A0A096MJS2, A6INE2, D4A9J3
      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

    8. XM_006244758.5 → XP_006244820.1  semaphorin-4C isoform X1

      UniProtKB/TrEMBL
      A0A096MJS2
      Related
      ENSRNOP00000068240.3, ENSRNOT00000075882.3
      Conserved Domains (4) summary
      cd11258
      Location:64 → 520
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00410
      Location:585 → 659
      IG_like; Immunoglobulin like
      smart00423
      Location:521 → 550
      PSI; domain found in Plexins, Semaphorins and Integrins
      cl11960
      Location:586 → 670
      Ig; Immunoglobulin domain

    9. XM_039083222.2 → XP_038939150.1  semaphorin-4C isoform X3

      UniProtKB/TrEMBL
      A0A096MJS2
      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
    Nucleotide Protein Strain
    Heading Accession and Version

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