U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Sema5b sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5B [ Mus musculus (house mouse) ]

Gene ID: 20357, updated on 11-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
Sema5bprovided by MGI
Official Full Name
sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5Bprovided by MGI
Primary source
MGI:MGI:107555
See related
Ensembl:ENSMUSG00000052133 AllianceGenome:MGI:107555
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
SemG; Semag; mKIAA1445
Summary
Predicted to enable chemorepellent activity and semaphorin receptor binding activity. Acts upstream of or within axon extension; detection of light stimulus involved in visual perception; and neuron projection guidance. Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in several structures, including central nervous system; future brain; genitourinary system; and trunk connective tissue. Orthologous to human SEMA5B (semaphorin 5B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in adrenal adult (RPKM 16.2), CNS E11.5 (RPKM 13.7) and 11 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
16 B3; 16 25.37 cM
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (35361517..35485103)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (35541154..35664261)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1600019K03 gene Neighboring gene PRAME family member 8 pseudogene Neighboring gene VISTA enhancer mm1471 Neighboring gene 40S ribosomal protein S21 pseudogene Neighboring gene solute carrier family 49 member 4 Neighboring gene predicted gene, 25967 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:35747524-35747731 Neighboring gene Hspb associated protein 1 Neighboring gene STARR-seq mESC enhancer starr_40745 Neighboring gene predicted gene, 26838

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Remote ischemic preconditioning causes transient cell cycle arrest and renal protection by a NF-κB-dependent Sema5B pathway. Rossaint J, et al. JCI Insight, 2022 Jul 22. PMID 35727636, Free PMC Article
  2. 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
  3. Identification of a novel transmembrane semaphorin expressed on lymphocytes. Furuyama T, et al. J Biol Chem, 1996 Dec 27. PMID 8969198
  4. A novel class of murine semaphorins with homology to thrombospondin is differentially expressed during early embryogenesis. Adams RH, et al. Mech Dev, 1996 Jun. PMID 8817451
  5. Invariant Sema5A inhibition serves an ensheathing function during optic nerve development. Oster SF, et al. Development, 2003 Feb. PMID 12506007

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (3)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
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 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 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
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 
acts_upstream_of_or_within neuron projection guidance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
semaphorin-5B
Names
sema G
semaphorin-G

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_013661.3 → NP_038689.2  semaphorin-5B precursor

    See identical proteins and their annotated locations for NP_038689.2

    Status: VALIDATED

    Source sequence(s)
    AC154653, CT010576
    Consensus CDS
    CCDS28140.1
    UniProtKB/Swiss-Prot
    B1B1A9, Q60519, Q6ZPQ8, Q7TT33, Q8BVE5
    Related
    ENSMUSP00000057494.9, ENSMUST00000050625.15
    Conserved Domains (4) summary
    smart00209
    Location:798 → 850
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:497 → 544
    PSI; Plexin repeat
    cl15278
    Location:911 → 952
    TSP_1; Thrombospondin type 1 domain
    cl15693
    Location:60 → 496
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

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_000082.7 Reference GRCm39 C57BL/6J

    Range
    35361517..35485103
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521869.2 → XP_006521932.1  semaphorin-5B isoform X1

    See identical proteins and their annotated locations for XP_006521932.1

    UniProtKB/Swiss-Prot
    Q60519
    Related
    ENSMUSP00000112536.2, ENSMUST00000120756.8
    Conserved Domains (4) summary
    smart00209
    Location:827 → 879
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:497 → 544
    PSI; Plexin repeat
    cl15278
    Location:940 → 981
    TSP_1; Thrombospondin type 1 domain
    cl15693
    Location:60 → 496
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

  2. XM_011245844.1 → XP_011244146.1  semaphorin-5B isoform X1

    See identical proteins and their annotated locations for XP_011244146.1

    UniProtKB/Swiss-Prot
    Q60519
    Conserved Domains (4) summary
    smart00209
    Location:827 → 879
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:497 → 544
    PSI; Plexin repeat
    cl15278
    Location:940 → 981
    TSP_1; Thrombospondin type 1 domain
    cl15693
    Location:60 → 496
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

  3. XM_030249006.1 → XP_030104866.1  semaphorin-5B isoform X2

    UniProtKB/Swiss-Prot
    B1B1A9, Q60519, Q6ZPQ8, Q7TT33, Q8BVE5
    Conserved Domains (4) summary
    smart00209
    Location:798 → 850
    TSP1; Thrombospondin type 1 repeats
    pfam01437
    Location:497 → 544
    PSI; Plexin repeat
    cl15278
    Location:911 → 952
    TSP_1; Thrombospondin type 1 domain
    cl15693
    Location:60 → 496
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

RNA

  1. XR_004939173.1 RNA Sequence

  2. XR_875743.3 RNA Sequence

  3. XR_003951770.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q60519.2 GenPept UniProtKB/Swiss-Prot:Q60519

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Other Literature Sources
Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous