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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 9-Dec-2024

    Summary

    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
    NEW
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    Try the new Transcript table

    Genomic context

    See Sema4c in Genome Data Viewer
    Location:
    1 B; 1 15.32 cM
    Exon count:
    18
    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

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    Interactions

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chemorepellent activity  
    enables neuropilin binding  
    enables protein binding PubMed 
    enables semaphorin receptor binding  
    enables semaphorin receptor binding  
    Process Evidence Code Pubs
    involved_in axon guidance  
    involved_in cell migration in hindbrain PubMed 
    involved_in cerebellum development PubMed 
    involved_in muscle cell differentiation PubMed 
    involved_in muscle cell differentiation  
    involved_in negative chemotaxis  
    involved_in neural crest cell migration  
    involved_in neural tube closure PubMed 
    involved_in positive regulation of cell migration  
    involved_in positive regulation of stress-activated MAPK cascade  
    involved_in positive regulation of stress-activated MAPK cascade  
    involved_in regulation of postsynapse assembly PubMed 
    involved_in regulation of postsynapse assembly PubMed 
    involved_in semaphorin-plexin signaling pathway  
    involved_in semaphorin-plexin signaling pathway PubMed 
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse PubMed 
    is_active_in plasma membrane  
    located_in postsynaptic density PubMed 
    is_active_in postsynaptic density membrane PubMed 
    is_active_in postsynaptic density membrane PubMed 
    is_active_in synaptic vesicle membrane  
    located_in synaptic vesicle membrane PubMed 

    General protein information

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

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001126047.4NP_001119519.1  semaphorin-4C precursor

      See identical proteins and their annotated locations for NP_001119519.1

      Status: REVIEWED

      Source sequence(s)
      AC084391
      Consensus CDS
      CCDS48240.1
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000110643.2, ENSMUST00000114991.8
      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    2. NM_001304329.2NP_001291258.1  semaphorin-4C precursor

      See identical proteins and their annotated locations for NP_001291258.1

      Status: REVIEWED

      Source sequence(s)
      AC084391
      Consensus CDS
      CCDS48240.1
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000141527.2, ENSMUST00000195620.6
      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    3. NM_001304330.2NP_001291259.1  semaphorin-4C precursor

      See identical proteins and their annotated locations for NP_001291259.1

      Status: REVIEWED

      Source sequence(s)
      AC084391
      Consensus CDS
      CCDS48240.1
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Related
      ENSMUSP00000142284.2, ENSMUST00000191642.6
      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    4. NM_001432616.1NP_001419545.1  semaphorin-4C precursor

      Status: REVIEWED

      Source sequence(s)
      AC084391
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
    5. NM_001432617.1NP_001419546.1  semaphorin-4C precursor

      Status: REVIEWED

      Source sequence(s)
      AC084391
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
    6. NM_001432618.1NP_001419547.1  semaphorin-4C precursor

      Status: REVIEWED

      Source sequence(s)
      AC084391
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
    7. NM_001432619.1NP_001419548.1  semaphorin-4C precursor

      Status: REVIEWED

      Source sequence(s)
      AC084391
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
    8. NM_001432620.1NP_001419549.1  semaphorin-4C precursor

      Status: REVIEWED

      Source sequence(s)
      AC084391
      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9

    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_036162916.1XP_036018809.1  semaphorin-4C isoform X2

      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    2. XM_006495805.3XP_006495868.1  semaphorin-4C isoform X2

      Related
      ENSMUSP00000141263.2, ENSMUST00000191677.6
      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    3. XM_017319410.2XP_017174899.1  semaphorin-4C isoform X3

      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      smart00423
      Location:358387
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:430438
      Ig; Ig strand B [structural motif]
      cl11960
      Location:423507
      Ig; Immunoglobulin domain
      cl15693
      Location:1357
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
    4. XM_036162919.1XP_036018812.1  semaphorin-4C isoform X3

      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      smart00423
      Location:358387
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:430438
      Ig; Ig strand B [structural motif]
      cl11960
      Location:423507
      Ig; Immunoglobulin domain
      cl15693
      Location:1357
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
    5. XM_006495808.3XP_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:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    6. XM_030252338.1XP_030108198.1  semaphorin-4C isoform X2

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    7. XM_006495804.3XP_006495867.1  semaphorin-4C isoform X1

      Conserved Domains (3) summary
      cd11258
      Location:151607
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:608637
      PSI; domain found in Plexins, Semaphorins and Integrins
      cl11960
      Location:673757
      Ig; Immunoglobulin domain
    8. XM_006495807.1XP_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:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    9. XM_006495810.5XP_006495873.1  semaphorin-4C isoform X2

      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    10. XM_006495809.5XP_006495872.1  semaphorin-4C isoform X2

      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
    11. XM_036162917.1XP_036018810.1  semaphorin-4C isoform X2

      UniProtKB/Swiss-Prot
      Q64151
      UniProtKB/TrEMBL
      Q69ZB9
      Conserved Domains (4) summary
      cd11258
      Location:42498
      Sema_4C; The Sema domain, a protein interacting module, of semaphorin 4C (Sema4C)
      smart00423
      Location:499528
      PSI; domain found in Plexins, Semaphorins and Integrins
      cd00096
      Location:571579
      Ig; Ig strand B [structural motif]
      cl11960
      Location:564648
      Ig; Immunoglobulin domain
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