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    Cntn4 contactin 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 116658, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Cntn4provided by RGD
    Official Full Name
    contactin 4provided by RGD
    Primary source
    RGD:621361
    See related
    EnsemblRapid:ENSRNOG00000005652 AllianceGenome:RGD:621361
    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
    Axcam; Big-2
    Summary
    Predicted to enable cell-cell adhesion mediator activity. Involved in brain development and neuron projection development. Predicted to be located in extracellular region and side of membrane. Predicted to be active in axon; plasma membrane; and synapse. Orthologous to human CNTN4 (contactin 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward (RPKM 96.0) See more
    Orthologs
    human all
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    Genomic context

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    See Cntn4 in Genome Data Viewer
    Location:
    4q41
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (140180696..141177771)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (138624584..139622499)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (137785166..138787527)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene contactin 6 Neighboring gene uncharacterized LOC120102360 Neighboring gene uncharacterized LOC120102503 Neighboring gene uncharacterized LOC134486620 Neighboring gene uncharacterized LOC120102501 Neighboring gene uncharacterized LOC120102502 Neighboring gene phosphoglycerate kinase 1, pseudogene 9 Neighboring gene U6 spliceosomal RNA Neighboring gene interleukin 5 receptor subunit alpha Neighboring gene tRNA nucleotidyl transferase 1

    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. Disruption of contactin 4 (CNTN4) results in developmental delay and other features of 3p deletion syndrome. Fernandez T, et al. Am J Hum Genet, 2004 Jun. PMID 15106122, Free PMC Article
    2. Identification and expression of a new splicing variant of FAD-sulfhydryl oxidase in adult rat brain. Radom J, et al. Biochim Biophys Acta, 2006 May. PMID 16806532
    3. Cloning and characterization of the human neural cell adhesion molecule, CNTN4 (alias BIG-2). Hansford LM, et al. Cytogenet Genome Res, 2003. PMID 14571131
    4. Overlapping and differential expression of BIG-2, BIG-1, TAG-1, and F3: four members of an axon-associated cell adhesion molecule subgroup of the immunoglobulin superfamily. Yoshihara Y, et al. J Neurobiol, 1995 Sep. PMID 8586965
    5. Identification of connexin-43 interacting proteins. Singh D, et al. Cell Commun Adhes, 2003 Jul-Dec. PMID 14681019

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cell-cell adhesion mediator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in brain development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in dendrite self-avoidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of neuron differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in nervous system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nervous system development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in neuron projection development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in synapse organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    contactin-4
    Names
    axonal-associated cell adhesion molecule
    brain-derived immunoglobulin superfamily protein 2

    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_053879.2 → NP_446331.1  contactin-4 precursor

      See identical proteins and their annotated locations for NP_446331.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      Q62845
      UniProtKB/TrEMBL
      A0A0G2JVI9, A6IBJ8
      Related
      ENSRNOP00000007788.6, ENSRNOT00000007788.8
      Conserved Domains (6) summary
      cd04969
      Location:422 → 494
      Ig5_Contactin_like; Fifth Ig domain of contactin
      cd05853
      Location:513 → 597
      Ig6_Contactin-4; Sixth Ig domain of contactin-4
      smart00410
      Location:415 → 494
      IG_like; Immunoglobulin like
      cd00063
      Location:597 → 690
      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 ...
      pfam07679
      Location:316 → 401
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:25 → 114
      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
      140180696..141177771
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063285413.1 → XP_063141483.1  contactin-4 isoform X1

      UniProtKB/Swiss-Prot
      Q62845
      UniProtKB/TrEMBL
      A6IBJ8

    2. XM_063285419.1 → XP_063141489.1  contactin-4 isoform X6

    3. XM_063285414.1 → XP_063141484.1  contactin-4 isoform X2

    4. XM_063285416.1 → XP_063141486.1  contactin-4 isoform X3

      Related
      ENSRNOP00000098447.2, ENSRNOT00000120834.2

    5. XM_039106945.2 → XP_038962873.1  contactin-4 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JVI9
      Conserved Domains (3) summary
      cd00063
      Location:596 → 689
      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:496 → 502
      Ig; Ig strand A [structural motif]
      cl11960
      Location:496 → 596
      Ig; Immunoglobulin domain

    6. XM_063285417.1 → XP_063141487.1  contactin-4 isoform X4

    7. XM_039106946.2 → XP_038962874.1  contactin-4 isoform X5

      UniProtKB/TrEMBL
      A0A8I6A640, A6IBJ9
      Related
      ENSRNOP00000086586.1, ENSRNOT00000111049.3
      Conserved Domains (4) summary
      cd00063
      Location:597 → 690
      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:225 → 230
      Ig; Ig strand A [structural motif]
      cd05853
      Location:496 → 597
      Ig6_Contactin-4; Sixth immunoglobulin (Ig) domain of contactin-4
      cl11960
      Location:225 → 313
      Ig; Immunoglobulin domain

    8. XM_063285412.1 → XP_063141482.1  contactin-4 isoform X1

      UniProtKB/Swiss-Prot
      Q62845
      UniProtKB/TrEMBL
      A6IBJ8

    9. XM_017592396.3 → XP_017447885.1  contactin-4 isoform X1

      UniProtKB/Swiss-Prot
      Q62845
      UniProtKB/TrEMBL
      A0A0G2JVI9, A6IBJ8

    10. XM_063285418.1 → XP_063141488.1  contactin-4 isoform X5

      UniProtKB/TrEMBL
      A0A8I6A640

    11. XM_063285415.1 → XP_063141485.1  contactin-4 isoform X2

      Related
      ENSRNOP00000098446.1, ENSRNOT00000120833.2

    12. XM_017592395.3 → XP_017447884.1  contactin-4 isoform X1

      UniProtKB/Swiss-Prot
      Q62845
      UniProtKB/TrEMBL
      A0A0G2JVI9, A6IBJ8
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q62845.1 GenPept UniProtKB/Swiss-Prot:Q62845

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