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    Cntn1 contactin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 117258, updated on 9-Dec-2024

    Summary

    Official Symbol
    Cntn1provided by RGD
    Official Full Name
    contactin 1provided by RGD
    Primary source
    RGD:621300
    See related
    EnsemblRapid:ENSRNOG00000004438 AllianceGenome:RGD:621300
    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
    F3
    Summary
    Predicted to enable carbohydrate binding activity and cell-cell adhesion mediator activity. Involved in positive regulation of peptidyl-tyrosine phosphorylation. Predicted to be located in side of membrane. Predicted to be active in axon; glutamatergic synapse; and synaptic membrane. Human ortholog(s) of this gene implicated in Compton-North congenital myopathy. Orthologous to human CNTN1 (contactin 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 826.3) and Lung (RPKM 58.6) See more
    Orthologs
    NEW
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    Genomic context

    See Cntn1 in Genome Data Viewer
    Location:
    7q35
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (125142638..125440397)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (123263146..123560896)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (133290606..133588314)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene U7 small nuclear RNA Neighboring gene NADH:ubiquinone oxidoreductase core subunit S2, pseudogene 2 Neighboring gene uncharacterized LOC120093711 Neighboring gene uncharacterized LOC134479769 Neighboring gene U1 small nuclear ribonucleoprotein C-like Neighboring gene PDZ domain containing RING finger 4 Neighboring gene U6 spliceosomal RNA

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables carbohydrate binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables cell-cell adhesion mediator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Notch signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in brain development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in central nervous system myelin formation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in central nervous system myelin formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cerebellum development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cerebellum development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in locomotory behavior IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in locomotory behavior ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in myelination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron projection development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within neuron projection development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of neuron projection development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of neuron projection development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of peptidyl-tyrosine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of sodium ion transport IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of sodium ion transport ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in postsynaptic membrane 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
     
    is_active_in synapse ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    contactin-1
    Names
    neural cell surface protein F3

    NCBI Reference Sequences (RefSeq)

    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_057118.2NP_476459.1  contactin-1 precursor

      See identical proteins and their annotated locations for NP_476459.1

      Status: PROVISIONAL

      Source sequence(s)
      D38492
      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
      Related
      ENSRNOP00000006219.4, ENSRNOT00000006219.7
      Conserved Domains (9) summary
      cd05851
      Location:241328
      IgI_3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily (IgSF) domains
      cd00063
      Location:612699
      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 ...
      pfam00041
      Location:813895
      fn3; Fibronectin type III domain
      cd00096
      Location:332335
      Ig; Ig strand A [structural motif]
      cd04970
      Location:503603
      Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
      cd05727
      Location:142230
      Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2, and similar domains
      cd05849
      Location:40134
      IgI_1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily domains
      cd05852
      Location:413501
      Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
      cl11960
      Location:332408
      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_086025.1 Reference GRCr8

      Range
      125142638..125440397
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017594616.3XP_017450105.1  contactin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
      Conserved Domains (9) summary
      cd05851
      Location:241328
      IgI_3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily (IgSF) domains
      cd00063
      Location:612699
      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 ...
      pfam00041
      Location:813895
      fn3; Fibronectin type III domain
      cd00096
      Location:332335
      Ig; Ig strand A [structural motif]
      cd04970
      Location:503603
      Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
      cd05727
      Location:142230
      Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2, and similar domains
      cd05849
      Location:40134
      IgI_1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily domains
      cd05852
      Location:413501
      Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
      cl11960
      Location:332408
      Ig; Immunoglobulin domain
    2. XM_008765659.4XP_008763881.1  contactin-1 isoform X2

      Conserved Domains (8) summary
      cd04970
      Location:520604
      Ig6_Contactin_like; Sixth Ig domain of contactin
      cd05727
      Location:134230
      Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
      cd05849
      Location:40132
      Ig1_Contactin-1; First Ig domain of contactin-1
      cd05851
      Location:241328
      Ig3_Contactin-1; Third Ig domain of contactin-1
      cd05852
      Location:429501
      Ig5_Contactin-1; Fifth Ig domain of contactin-1
      smart00410
      Location:422501
      IG_like; Immunoglobulin like
      pfam07679
      Location:331408
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:332408
      Ig; Immunoglobulin domain
    3. XM_063262899.1XP_063118969.1  contactin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
    4. XM_063262902.1XP_063118972.1  contactin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
    5. XM_039078298.1XP_038934226.1  contactin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
      Related
      ENSRNOP00000098410.1, ENSRNOT00000120797.2
      Conserved Domains (9) summary
      cd05851
      Location:241328
      IgI_3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily (IgSF) domains
      cd00063
      Location:612699
      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 ...
      pfam00041
      Location:813895
      fn3; Fibronectin type III domain
      cd00096
      Location:332335
      Ig; Ig strand A [structural motif]
      cd04970
      Location:503603
      Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
      cd05727
      Location:142230
      Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2, and similar domains
      cd05849
      Location:40134
      IgI_1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily domains
      cd05852
      Location:413501
      Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
      cl11960
      Location:332408
      Ig; Immunoglobulin domain
    6. XM_063262901.1XP_063118971.1  contactin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
    7. XM_063262904.1XP_063118974.1  contactin-1 isoform X2

    8. XM_063262907.1XP_063118977.1  contactin-1 isoform X2

    9. XM_063262905.1XP_063118975.1  contactin-1 isoform X2

    10. XM_063262908.1XP_063118978.1  contactin-1 isoform X2

    11. XM_063262903.1XP_063118973.1  contactin-1 isoform X2

    12. XM_063262906.1XP_063118976.1  contactin-1 isoform X2

    13. XM_006242177.5XP_006242239.1  contactin-1 isoform X1

      See identical proteins and their annotated locations for XP_006242239.1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9
      Conserved Domains (9) summary
      cd05851
      Location:241328
      IgI_3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily (IgSF) domains
      cd00063
      Location:612699
      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 ...
      pfam00041
      Location:813895
      fn3; Fibronectin type III domain
      cd00096
      Location:332335
      Ig; Ig strand A [structural motif]
      cd04970
      Location:503603
      Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
      cd05727
      Location:142230
      Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2, and similar domains
      cd05849
      Location:40134
      IgI_1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1; member of the I-set of Ig superfamily domains
      cd05852
      Location:413501
      Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
      cl11960
      Location:332408
      Ig; Immunoglobulin domain
    14. XM_063262900.1XP_063118970.1  contactin-1 isoform X1

      UniProtKB/Swiss-Prot
      Q63198
      UniProtKB/TrEMBL
      A0A8L2R3Y6, A6K7R9