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    SEMA4F ssemaphorin 4F [ Homo sapiens (human) ]

    Gene ID: 10505, updated on 11-Jun-2021

    Summary

    Official Symbol
    SEMA4Fprovided by HGNC
    Official Full Name
    ssemaphorin 4Fprovided by HGNC
    Primary source
    HGNC:HGNC:10734
    See related
    Ensembl:ENSG00000135622 MIM:603706
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    S4F; SEMAM; SEMAW; M-SEMA; PRO2353; m-Sema-M
    Summary
    This gene encodes a transmembrane class IV semaphorin family protein, which plays a role in neural development. This gene may be involved in neurogenesis in prostate cancer, the development of neurofibromas, and breast cancer tumorigenesis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2012]
    Expression
    Broad expression in brain (RPKM 2.1), testis (RPKM 1.1) and 22 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See SEMA4F in Genome Data Viewer
    Location:
    2p13.1
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (74654229..74699013)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (74881374..74910968)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene meiosis 1 associated protein Neighboring gene TOR1B pseudogene 1 Neighboring gene TVP23B pseudogene 2 Neighboring gene uncharacterized LOC105374808 Neighboring gene uncharacterized LOC102724497 Neighboring gene uncharacterized LOC102724482 Neighboring gene ribosomal protein S28 pseudogene 5

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Genetic variants on chromosome 1q41 influence ocular axial length and high myopia.
    GeneReviews: Not available

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ38268

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables chemorepellent activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables semaphorin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in cell-cell signaling TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in negative chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in negative regulation of axon extension involved in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in nervous system development TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in neural crest cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in retinal ganglion cell axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in semaphorin-plexin signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
     
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    is_active_in integral component of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in perikaryon IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in postsynaptic density IEA
    Inferred from Electronic Annotation
    more info
     
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

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

    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_001271661.2NP_001258590.1  semaphorin-4F isoform 2 precursor

      See identical proteins and their annotated locations for NP_001258590.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks several internal exons, resulting in the loss of an in-frame segment in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
      Source sequence(s)
      AC007387, BC018361, CK905501, DC306380
      Consensus CDS
      CCDS62942.1
      UniProtKB/Swiss-Prot
      O95754
      Related
      ENSP00000342675.5, ENST00000339773.9
      Conserved Domains (3) summary
      pfam01437
      Location:357408
      PSI; Plexin repeat
      cl11960
      Location:415494
      Ig; Immunoglobulin domain
      cl15693
      Location:52356
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
    2. NM_001271662.2NP_001258591.1  semaphorin-4F isoform 3 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an internal in-frame exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
      Source sequence(s)
      AC007387, AK308166, AL136552, CK905501, DC306380
      Consensus CDS
      CCDS74529.1
      UniProtKB/Swiss-Prot
      O95754
      UniProtKB/TrEMBL
      A0A087WYZ7
      Related
      ENSP00000482238.1, ENST00000611975.4
      Conserved Domains (3) summary
      cd11261
      Location:52478
      Sema_4F; The Sema domain, a protein interacting module, of semaphorin 4F (Sema4F)
      pfam01437
      Location:479530
      PSI; Plexin repeat
      cl11960
      Location:537616
      Ig; Immunoglobulin domain
    3. NM_004263.5NP_004254.2  semaphorin-4F isoform 1 precursor

      See identical proteins and their annotated locations for NP_004254.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC007387, AL136552, CK905501, DC306380
      Consensus CDS
      CCDS1955.1
      UniProtKB/Swiss-Prot
      O95754
      Related
      ENSP00000350547.2, ENST00000357877.7
      Conserved Domains (3) summary
      cd05872
      Location:570649
      Ig_Sema4B_like; Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4B
      cd11261
      Location:52511
      Sema_4F; The Sema domain, a protein interacting module, of semaphorin 4F (Sema4F)
      pfam01437
      Location:512563
      PSI; Plexin repeat

    RNA

    1. NR_073398.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC007387, AK312728, CK905501, DC306380
    2. NR_073399.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB021292, AC007387, AL136552, CK905501, DC306380

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

      Range
      74654229..74699013
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017003174.1XP_016858663.1  semaphorin-4F isoform X6

    2. XM_011532477.3XP_011530779.1  semaphorin-4F isoform X5

      Conserved Domains (2) summary
      cd11261
      Location:52511
      Sema_4F; The Sema domain, a protein interacting module, of semaphorin 4F (Sema4F)
      pfam01437
      Location:512563
      PSI; Plexin repeat
    3. XM_011532476.3XP_011530778.1  semaphorin-4F isoform X4

      Conserved Domains (2) summary
      cd11261
      Location:52511
      Sema_4F; The Sema domain, a protein interacting module, of semaphorin 4F (Sema4F)
      pfam01437
      Location:512563
      PSI; Plexin repeat
    4. XM_011532475.3XP_011530777.1  semaphorin-4F isoform X3

      Conserved Domains (3) summary
      cd11261
      Location:52511
      Sema_4F; The Sema domain, a protein interacting module, of semaphorin 4F (Sema4F)
      pfam01437
      Location:512563
      PSI; Plexin repeat
      cl11960
      Location:570616
      Ig; Immunoglobulin domain
    5. XM_017003172.1XP_016858661.1  semaphorin-4F isoform X1

    6. XM_017003173.1XP_016858662.1  semaphorin-4F isoform X2

    RNA

    1. XR_001738590.1 RNA Sequence

    2. XR_001738588.2 RNA Sequence

    3. XR_001738589.2 RNA Sequence

    4. XR_939650.3 RNA Sequence

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