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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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    See Svbp in Genome Data Viewer
    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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