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    Sema3c semaphorin 3C [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296787, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sema3cprovided by RGD
    Official Full Name
    semaphorin 3Cprovided by RGD
    Primary source
    RGD:1309343
    See related
    EnsemblRapid:ENSRNOG00000006526 AllianceGenome:RGD:1309343
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable chemorepellent activity; neuropilin binding activity; and semaphorin receptor binding activity. Predicted to be involved in several processes, including chordate embryonic development; circulatory system development; and mesenchymal cell differentiation. Predicted to act upstream of or within several processes, including blood vessel remodeling; dichotomous subdivision of terminal units involved in salivary gland branching; and heart development. Predicted to be active in extracellular space and plasma membrane. Orthologous to human SEMA3C (semaphorin 3C). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 607.3), Muscle (RPKM 350.0) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sema3c in Genome Data Viewer
    Location:
    4q11
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (18538452..18702453, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (17583212..17747234, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (14318276..14490438, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene platelet glycoprotein 4-like Neighboring gene CD36 molecule like 2 Neighboring gene uncharacterized LOC120102215 Neighboring gene ribosomal protein S9, pseudogene 5 Neighboring gene uncharacterized LOC102551002

    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. The axonal guidance cue semaphorin 3C contributes to alveolar growth and repair. Vadivel A, et al. PLoS One, 2013. PMID 23840631, Free PMC Article
    2. Expression of Semaphorin3C in axotomized rodent facial and rubrospinal neurons. Oschipok LW, et al. Neurosci Lett, 2008 Mar 21. PMID 18308469
    3. Increased prevalence of semaphorin 3C, a repellent of sympathetic nerve fibers, in the synovial tissue of patients with rheumatoid arthritis. Miller LE, et al. Arthritis Rheum, 2004 Apr. PMID 15077297
    4. Identification of human semaphorin E gene expression in rheumatoid synovial cells by mRNA differential display. Mangasser-Stephan K, et al. Biochem Biophys Res Commun, 1997 May 8. PMID 9168980
    5. Semaphorins 3A, 3C, and 3F in mesencephalic dopaminergic axon pathfinding. Hernández-Montiel HL, et al. J Comp Neurol, 2008 Jan 20. PMID 18041777

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Sema3C promotes normal alveolar growth.
      Title: The axonal guidance cue semaphorin 3C contributes to alveolar growth and repair.
    2. This demonstrates that increased Sema3C mRNA levels in axotomized rubrospinal neurons is common to both mouse and rat injury models.
      Title: Expression of Semaphorin3C in axotomized rodent facial and rubrospinal neurons.
    3. Sema3C had an attractive effect and enhanced axon growth
      Title: Semaphorins 3A, 3C, and 3F in mesencephalic dopaminergic axon pathfinding.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC189535

    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
    		  
    enables semaphorin receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in axon guidance ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within blood vessel remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cardiac endothelial to mesenchymal transition ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cardiac right ventricle morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within dichotomous subdivision of terminal units involved in salivary gland branching ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within heart development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in limb bud formation 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
    		  
    acts_upstream_of_or_within neural crest cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neural tube development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in outflow tract morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in outflow tract septum morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cardiac neural crest cell migration involved in outflow tract morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within post-embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pulmonary myocardium development 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 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
    		  
    involved_in somitogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    semaphorin-3C
    Names
    sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C

    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_001106578.1 → NP_001100048.1  semaphorin-3C precursor

      See identical proteins and their annotated locations for NP_001100048.1

      Status: PROVISIONAL

      Source sequence(s)
      BC169108
      UniProtKB/TrEMBL
      A0A8I6A4P5, B5DFL7
      Conserved Domains (4) summary
      cd05871
      Location:575 → 664
      Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
      cd11251
      Location:45 → 514
      Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
      smart00410
      Location:579 → 653
      IG_like; Immunoglobulin like
      smart00423
      Location:513 → 550
      PSI; domain found in Plexins, Semaphorins and Integrins

    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_086022.1 Reference GRCr8

      Range
      18538452..18702453 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008762645.4 → XP_008760867.1  semaphorin-3C isoform X1

      UniProtKB/TrEMBL
      A0A8I6A4P5, F7FHT4
      Related
      ENSRNOP00000009132.6, ENSRNOT00000009132.8
      Conserved Domains (4) summary
      cd05871
      Location:584 → 673
      Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
      cd11251
      Location:51 → 520
      Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
      smart00410
      Location:588 → 662
      IG_like; Immunoglobulin like
      smart00423
      Location:519 → 556
      PSI; domain found in Plexins, Semaphorins and Integrins

    2. XM_008762646.4 → XP_008760868.1  semaphorin-3C isoform X2

      UniProtKB/TrEMBL
      A0A8I6A4P5
      Conserved Domains (4) summary
      cd05871
      Location:581 → 670
      Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
      cd11251
      Location:51 → 520
      Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
      smart00410
      Location:585 → 659
      IG_like; Immunoglobulin like
      smart00423
      Location:519 → 556
      PSI; domain found in Plexins, Semaphorins and Integrins
    Nucleotide Protein Strain
    Heading Accession and Version

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