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    Cntn6 contactin 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 27256, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cntn6provided by RGD
    Official Full Name
    contactin 6provided by RGD
    Primary source
    RGD:62008
    See related
    EnsemblRapid:ENSRNOG00000032517 AllianceGenome:RGD:62008
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    NB-3
    Summary
    Predicted to be involved in Notch signaling pathway and cell adhesion. Predicted to act upstream of or within positive regulation of Notch signaling pathway. Predicted to be located in plasma membrane. Predicted to be active in parallel fiber to Purkinje cell synapse and presynaptic membrane. Orthologous to human CNTN6 (contactin 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 59.7) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cntn6 in Genome Data Viewer
    Location:
    4q41
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (138911090..139307339)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (137354886..137751712)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (136512201..136904355)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ATP binding cassette subfamily F member 2, pseudogene 2 Neighboring gene uncharacterized LOC120102360 Neighboring gene uncharacterized LOC120102503 Neighboring gene contactin 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Contribution of the neural cell recognition molecule NB-3 to synapse formation between parallel fibers and Purkinje cells in mouse. Sakurai K, et al. Dev Neurobiol, 2009 Oct. PMID 19672956
    2. Impaired motor coordination in mice lacking neural recognition molecule NB-3 of the contactin/F3 subgroup. Takeda Y, et al. J Neurobiol, 2003 Sep 5. PMID 12884264
    3. Novel neural adhesion molecules in the Contactin/F3 subgroup of the immunoglobulin superfamily: isolation and characterization of cDNAs from rat brain. Ogawa J, et al. Neurosci Lett, 1996 Nov 8. PMID 8945756
    4. Adropin is a brain membrane-bound protein regulating physical activity via the NB-3/Notch signaling pathway in mice. Wong CM, et al. J Biol Chem, 2014 Sep 12. PMID 25074942, Free PMC Article
    5. NB-3/Notch1 pathway via Deltex1 promotes neural progenitor cell differentiation into oligodendrocytes. Cui XY, et al. J Biol Chem, 2004 Jun 11. PMID 15082708

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NB-3/Notch1 pathway promotes neural progenitor cell differentiation into oligodendrocytes via Deltex1.
      Title: NB-3/Notch1 pathway via Deltex1 promotes neural progenitor cell differentiation into oligodendrocytes.
    2. Immunohistochemistry of the cerebellum from 3-month-old rats demonstrates that lobules 1-8 are distinct from lobules 9 and 10 with respect to localization of NB-3 protein.
      Title: Impaired motor coordination in mice lacking neural recognition molecule NB-3 of the contactin/F3 subgroup.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in Notch signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of Notch signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within positive regulation of Notch signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in neuron projection IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in parallel fiber to Purkinje cell synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in parallel fiber to Purkinje cell synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in presynapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in presynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in presynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    contactin-6
    Names
    neural adhesion molecule
    neural recognition molecule NB-3

    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_013225.2 → NP_037357.1  contactin-6 precursor

      See identical proteins and their annotated locations for NP_037357.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      P97528
      UniProtKB/TrEMBL
      F1LRK7
      Related
      ENSRNOP00000047690.6, ENSRNOT00000051645.6
      Conserved Domains (5) summary
      smart00060
      Location:903 → 983
      FN3; Fibronectin type 3 domain
      cd00063
      Location:598 → 691
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00096
      Location:319 → 322
      Ig; Ig strand A [structural motif]
      cd04969
      Location:408 → 496
      Ig5_Contactin; Fifth immunoglobulin (Ig) domain of contactin
      cl11960
      Location:319 → 403
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      138911090..139307339
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039107156.2 → XP_038963084.1  contactin-6 isoform X1

      UniProtKB/Swiss-Prot
      P97528
      UniProtKB/TrEMBL
      F1LRK7
      Conserved Domains (5) summary
      smart00060
      Location:903 → 983
      FN3; Fibronectin type 3 domain
      cd00063
      Location:598 → 691
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00096
      Location:319 → 322
      Ig; Ig strand A [structural motif]
      cd04969
      Location:408 → 496
      Ig5_Contactin; Fifth immunoglobulin (Ig) domain of contactin
      cl11960
      Location:319 → 403
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P97528.1 GenPept UniProtKB/Swiss-Prot:P97528

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