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Svbp small vasohibin binding protein [ Mus musculus (house mouse) ]

Gene ID: 69216, updated on 5-Mar-2024

Summary

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Official Symbol
Svbpprovided by MGI
Official Full Name
small vasohibin binding proteinprovided by MGI
Primary source
MGI:MGI:1916466
See related
Ensembl:ENSMUSG00000028643 AllianceGenome:MGI:1916466
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
Ccdc23; 2410005K17Rik
Summary
Predicted to enable microtubule binding activity. Involved in axon development and proteolysis. Predicted to be located in cytoplasm; cytoskeleton; and extracellular region. Predicted to be active in apical part of cell. Is expressed in brain and hippocampus. Orthologous to human SVBP (small vasohibin binding protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 56.7), CNS E14 (RPKM 30.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
4 D2.1; 4 55.34 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (119052507..119058495)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (119195310..119201298)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E422 Neighboring gene zinc finger protein 691 Neighboring gene erythroblast membrane-associated protein Neighboring gene transmembrane protein 269 Neighboring gene expressed sequence AU022252 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:118905472-118905581

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. Defective tubulin detyrosination causes structural brain abnormalities with cognitive deficiency in humans and mice. Pagnamenta AT, et al. Hum Mol Genet, 2019 Oct 15. PMID 31363758, Free PMC Article
  2. Posttranslational modification of microtubules by the MATCAP detyrosinase. Landskron L, et al. Science, 2022 May 20. PMID 35482892
  3. Isolation of a small vasohibin-binding protein (SVBP) and its role in vasohibin secretion. Suzuki Y, et al. J Cell Sci, 2010 Sep 15. PMID 20736312
  4. Structural basis of tubulin detyrosination by VASH2/SVBP heterodimer. Zhou C, et al. Nat Commun, 2019 Jul 19. PMID 31324789, Free PMC Article
  5. Vasohibins/SVBP are tubulin carboxypeptidases (TCPs) that regulate neuron differentiation. Aillaud C, et al. Science, 2017 Dec 15. PMID 29146868

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables microtubule binding ISO
Inferred from Sequence Orthology
more info
  
enables peptidase activator activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables peptidase activator activity ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in axon development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in axon development ISO
Inferred from Sequence Orthology
more info
  
involved_in brain development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within negative regulation of endothelial cell migration ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of protein ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein secretion IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within protein secretion ISO
Inferred from Sequence Orthology
more info
  
involved_in proteolysis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in proteolysis ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of metallopeptidase activity ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in apical part of cell IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in apical part of cell ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
small vasohibin-binding protein
Names
coiled-coil domain containing 23
coiled-coil domain-containing protein 23

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_001038998.2 → NP_001034087.1  small vasohibin-binding protein isoform a

    See identical proteins and their annotated locations for NP_001034087.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AL606975, BQ044357
    Consensus CDS
    CCDS18572.1
    UniProtKB/TrEMBL
    A2A7P9
    Related
    ENSMUSP00000095518.4, ENSMUST00000097908.4
    Conserved Domains (1) summary
    pfam15674
    Location:42 → 98
    CCDC23; Coiled-coil domain-containing protein 23

  2. NM_024462.2 → NP_077782.1  small vasohibin-binding protein isoform b

    See identical proteins and their annotated locations for NP_077782.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR and uses a downstream start codon, compared to variant 1. The resulting isoform (b) has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    AK010418, BF012097, BQ044357
    Consensus CDS
    CCDS38858.1
    UniProtKB/Swiss-Prot
    Q99LQ4
    Related
    ENSMUSP00000030395.3, ENSMUST00000030395.9
    Conserved Domains (1) summary
    pfam15674
    Location:6 → 62
    CCDC23; Coiled-coil domain-containing protein 23

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_000070.7 Reference GRCm39 C57BL/6J

    Range
    119052507..119058495
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001038711.1: Suppressed sequence

    Description
    NM_001038711.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q99LQ4.1 GenPept UniProtKB/Swiss-Prot:Q99LQ4

Gene LinkOut

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