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Sema5a sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5A [ Mus musculus (house mouse) ]

Gene ID: 20356, updated on 21-Apr-2024

Summary

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Official Symbol
Sema5aprovided by MGI
Official Full Name
sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5Aprovided by MGI
Primary source
MGI:MGI:107556
See related
Ensembl:ENSMUSG00000022231 AllianceGenome:MGI:107556
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
semF; Semaf; 5930434A13; 9130201M22Rik
Summary
Enables axon guidance receptor activity and semaphorin receptor binding activity. Involved in several processes, including blood vessel endothelial cell proliferation involved in sprouting angiogenesis; negative regulation of endothelial cell apoptotic process; and regulation of signal transduction. Acts upstream of or within axonogenesis; branching involved in blood vessel morphogenesis; and detection of light stimulus involved in visual perception. Is integral component of membrane. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; hemolymphoid system; and sensory organ. Orthologous to human SEMA5A (semaphorin 5A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in ovary adult (RPKM 13.8), limb E14.5 (RPKM 11.9) and 21 other tissues See more
Orthologs
human all
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Genomic context

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Location:
15 B3.1; 15 13.02 cM
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (32244959..32696487)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (32244813..32696341)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32499 Neighboring gene taste receptor, type 2, member 119 Neighboring gene STARR-seq mESC enhancer starr_38297 Neighboring gene small nucleolar RNA, C/D box 123 Neighboring gene small nucleolar RNA host gene 18 Neighboring gene STARR-seq mESC enhancer starr_38298 Neighboring gene predicted gene, 53870 Neighboring gene predicted gene, 41289 Neighboring gene predicted gene, 32618

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Are Sema5a mutant mice a good model of autism? A behavioral analysis of sensory systems, emotionality and cognition. Gunn RK, et al. Behav Brain Res, 2011 Nov 20. PMID 21777623, Free PMC Article
  2. The mouse semaphorin F (Semaf) maps to chromosome 15. Wakana S, et al. Mamm Genome, 1997 Sep. PMID 9271677
  3. Semaphorin 5A is a bifunctional axon guidance cue regulated by heparan and chondroitin sulfate proteoglycans. Kantor DB, et al. Neuron, 2004 Dec 16. PMID 15603739
  4. Semaphorin 5A inhibits synaptogenesis in early postnatal- and adult-born hippocampal dentate granule cells. Duan Y, et al. Elife, 2014 Oct 14. PMID 25313870, Free PMC Article
  5. Molecular cloning and mapping of human semaphorin F from the Cri-du-chat candidate interval. Simmons AD, et al. Biochem Biophys Res Commun, 1998 Jan 26. PMID 9464278

See all (61) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Mouse Sema5A negatively regulates synaptogenesis in early, developmentally born, hippocampal dentate granule cells.
    Title: Semaphorin 5A inhibits synaptogenesis in early postnatal- and adult-born hippocampal dentate granule cells.
  2. The results of this study concluded that the Sema5a mice do not meet the behavioral criteria for a mouse model of autism.
    Title: Are Sema5a mutant mice a good model of autism? A behavioral analysis of sensory systems, emotionality and cognition.
  3. Sema5A and Sema5B inhibit retinal neurite outgrowth through PlexinA1 and PlexinA3 receptors both in vitro and in vivo.
    Title: Class 5 transmembrane semaphorins control selective Mammalian retinal lamination and function.
  4. Data reveal that Sema5A is a novel proangiogenic molecule, inducing endothelial cell proliferation and migration and inhibiting apoptosis.
    Title: Semaphorin 5A promotes angiogenesis by increasing endothelial cell proliferation, migration, and decreasing apoptosis.
  5. A role of Sema5A in the remodeling of the cranial blood vessels was shown.
    Title: Inactivation of the Sema5a gene results in embryonic lethality and defective remodeling of the cranial vascular system.
  6. Semaphorin 5A (Sema5A) is a bifunctional guidance cue exerting both attractive and inhibitory effects on developing axons of the fasciculus retroflexus, a diencephalon fiber tract associated with limbic function.
    Title: Semaphorin 5A is a bifunctional axon guidance cue regulated by heparan and chondroitin sulfate proteoglycans.
  7. Plexin-B3 is a functional receptor for semaphorin 5A
    Title: Plexin-B3 is a functional receptor for semaphorin 5A.
  8. development of some CNS nerves requires inhibitory sheaths to maintain integrity, this is accomplished using molecules such as Sema5A that exhibit conserved inhibitory responses in the presence of impinging signals from multiple guidance molecules.
    Title: Invariant Sema5A inhibition serves an ensheathing function during optic nerve development.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables axon guidance receptor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chondroitin sulfate proteoglycan binding ISO
Inferred from Sequence Orthology
more info
  
enables heparan sulfate proteoglycan binding ISO
Inferred from Sequence Orthology
more info
  
enables semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables semaphorin receptor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables syndecan binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in axon extension IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within axon extension IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within axon guidance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in axonal fasciculation ISO
Inferred from Sequence Orthology
more info
  
involved_in blood vessel endothelial cell proliferation involved in sprouting angiogenesis IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within branching involved in blood vessel morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within branching morphogenesis of an epithelial tube IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within detection of light stimulus involved in visual perception IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in diencephalon development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of axon extension involved in axon guidance ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of cell adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of endothelial cell apoptotic process IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
more info
  
involved_in neural crest cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within neuron projection extension IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within neuron projection extension IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within neuron projection guidance IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in positive chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of actin filament depolymerization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of angiogenesis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of axon extension involved in axon guidance ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of canonical Wnt signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of endothelial cell chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of endothelial cell proliferation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of extracellular matrix disassembly NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in semaphorin-plexin signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in signal clustering IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in signal clustering ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in membrane 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-5A
Names
M-Sema D
sema F
semaphorin F

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_009154.2 → NP_033180.2  semaphorin-5A precursor

    See identical proteins and their annotated locations for NP_033180.2

    Status: VALIDATED

    Source sequence(s)
    AC110236, AK141612, BB643469
    Consensus CDS
    CCDS37055.1
    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Related
    ENSMUSP00000069024.7, ENSMUST00000067458.7
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    32244959..32696487
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036159282.1 → XP_036015175.1  semaphorin-5A isoform X1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

  2. XM_030248431.2 → XP_030104291.1  semaphorin-5A isoform X1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

  3. XM_030248430.2 → XP_030104290.1  semaphorin-5A isoform X1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

  4. XM_036159281.1 → XP_036015174.1  semaphorin-5A isoform X1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

  5. XM_036159283.1 → XP_036015176.1  semaphorin-5A isoform X2

    UniProtKB/Swiss-Prot
    Q62217
    Conserved Domains (3) summary
    smart00209
    Location:441 → 494
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:329 → 376
    PSI; Plexin repeat
    cl15693
    Location:1 → 328
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

  6. XM_011245340.2 → XP_011243642.1  semaphorin-5A isoform X1

    See identical proteins and their annotated locations for XP_011243642.1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

  7. XM_036159280.1 → XP_036015173.1  semaphorin-5A isoform X1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat

  8. XM_006520043.5 → XP_006520106.1  semaphorin-5A isoform X1

    See identical proteins and their annotated locations for XP_006520106.1

    UniProtKB/Swiss-Prot
    Q62217
    UniProtKB/TrEMBL
    Q3UPZ0
    Conserved Domains (3) summary
    cd11263
    Location:50 → 485
    Sema_5A; The Sema domain, a protein interacting module, of semaphorin 5A (Sema5A)
    smart00209
    Location:598 → 651
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:486 → 533
    PSI; Plexin repeat
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q62217.1 GenPept UniProtKB/Swiss-Prot:Q62217

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