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SEMA4F ssemaphorin 4F [ Homo sapiens (human) ]

Gene ID: 10505, updated on 4-Jun-2020

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

Genomic context

See SEMA4F in Genome Data Viewer
Location:
2p13.1
Exon count:
17
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (74654228..74699013)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (74881355..74910981)

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?

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

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_001271662.1NP_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.

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
    74654228..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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