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    Cntn3 contactin 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 54279, updated on 14-Nov-2024

    Summary

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    Official Symbol
    Cntn3provided by RGD
    Official Full Name
    contactin 3provided by RGD
    Primary source
    RGD:3253
    See related
    EnsemblRapid:ENSRNOG00000006144 AllianceGenome:RGD:3253
    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
    Pang; BIG-1
    Summary
    Involved in neuron projection development. Predicted to be located in plasma membrane and side of membrane. Orthologous to human CNTN3 (contactin 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 49.4), Uterus (RPKM 6.8) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cntn3 in Genome Data Viewer
    Location:
    4q34-q41
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (136397575..136770765, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (134841268..135214460, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (134783671..135159309, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene tubulin, alpha 1B, pseudogene 2 Neighboring gene ribosomal protein L13, pseudogene 14 Neighboring gene U2 spliceosomal RNA Neighboring gene small Cajal body-specific RNA 16 Neighboring gene U6 spliceosomal RNA

    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 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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    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neuron projection development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in neuron projection 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
    		  

    General protein information

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    Preferred Names
    contactin-3
    Names
    Plasmacytoma-associated neuronal glycoprotein (neural cell adhesion molecule BIG-1)
    brain-derived immunoglobulin superfamily protein 1
    contactin 3 (plasmacytoma associated)

    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_019329.2 → NP_062202.1  contactin-3 precursor

      See identical proteins and their annotated locations for NP_062202.1

      Status: PROVISIONAL

      Source sequence(s)
      U11031
      UniProtKB/Swiss-Prot
      Q62682
      UniProtKB/TrEMBL
      A0A8I6A9N6
      Related
      ENSRNOP00000008221.6, ENSRNOT00000008221.8
      Conserved Domains (4) summary
      smart00410
      Location:234 → 313
      IG_like; Immunoglobulin like
      cd00063
      Location:598 → 695
      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:318 → 403
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:227 → 315
      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
      136397575..136770765 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006236968.5 → XP_006237030.1  contactin-3 isoform X1

      See identical proteins and their annotated locations for XP_006237030.1

      UniProtKB/Swiss-Prot
      Q62682
      UniProtKB/TrEMBL
      A0A8I6A9N6
      Conserved Domains (4) summary
      smart00410
      Location:234 → 313
      IG_like; Immunoglobulin like
      cd00063
      Location:598 → 695
      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:318 → 403
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:227 → 315
      Ig; Immunoglobulin domain

    2. XM_039108281.2 → XP_038964209.1  contactin-3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A9N6
      Related
      ENSRNOP00000099826.1, ENSRNOT00000123239.1
      Conserved Domains (3) summary
      cd00063
      Location:598 → 695
      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:498 → 504
      Ig; Ig strand A [structural motif]
      cl11960
      Location:498 → 598
      Ig; Immunoglobulin domain

    3. XM_063286624.1 → XP_063142694.1  contactin-3 isoform X4

    4. XM_039108284.2 → XP_038964212.1  contactin-3 isoform X4

      Conserved Domains (3) summary
      cd00063
      Location:184 → 281
      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:84 → 90
      Ig; Ig strand A [structural motif]
      cl11960
      Location:84 → 184
      Ig; Immunoglobulin domain

    5. XM_039108283.2 → XP_038964211.1  contactin-3 isoform X4

      Conserved Domains (3) summary
      cd00063
      Location:184 → 281
      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:84 → 90
      Ig; Ig strand A [structural motif]
      cl11960
      Location:84 → 184
      Ig; Immunoglobulin domain

    6. XM_039108282.2 → XP_038964210.1  contactin-3 isoform X3

      UniProtKB/TrEMBL
      A6IBJ1
      Conserved Domains (3) summary
      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:498 → 504
      Ig; Ig strand A [structural motif]
      cl11960
      Location:498 → 598
      Ig; Immunoglobulin domain

    7. XM_039108285.2 → XP_038964213.1  contactin-3 isoform X5

      UniProtKB/TrEMBL
      A6IBJ1
      Conserved Domains (2) summary
      cd00096
      Location:227 → 232
      Ig; Ig strand A [structural motif]
      cl11960
      Location:227 → 315
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q62682.1 GenPept UniProtKB/Swiss-Prot:Q62682

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