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    Cntnap5c contactin associated protein-like 5C [ Rattus norvegicus (Norway rat) ]

    Gene ID: 297846, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cntnap5cprovided by RGD
    Official Full Name
    contactin associated protein-like 5Cprovided by RGD
    Primary source
    RGD:1566343
    See related
    EnsemblRapid:ENSRNOG00000029556 AllianceGenome:RGD:1566343
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Cntnap5; Caspr5-4; Cntnap5d; RGD1566343
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to be located in basement membrane and membrane. Orthologous to human CNTNAP5 (contactin associated protein family member 5). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 50.8) See more
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    Genomic context

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    See Cntnap5c in Genome Data Viewer
    Location:
    13p13
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (3521265..4553884)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (3513615..4546285)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (6312302..7538647)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene high mobility group box 1 like 4 Neighboring gene MLV-related proviral Env polyprotein-like, pseudogene 7 Neighboring gene heat shock protein 90 alpha family class A member 1, pseudogene 16 Neighboring gene uncharacterized LOC134481467 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC134481466 Neighboring gene probable crossover junction endonuclease EME2 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene 60S ribosomal protein L36a-like Neighboring gene solute carrier family 25 member 36-like Neighboring gene splicing factor proline and glutamine rich, pseudogene 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. New members of the neurexin superfamily: multiple rodent homologues of the human CASPR5 gene. Traut W, et al. Mamm Genome, 2006 Jul. PMID 16845472

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in basement membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    contactin-associated protein like 5-4
    Names
    cell recognition molecule Caspr5-3
    cell recognition molecule Caspr5-4
    cell recognition molecule Caspr5c
    cell recognition molecule Caspr5d
    contactin associated protein-like 5
    contactin-associated protein-like 5d

    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_001047866.3 → NP_001041331.1  contactin-associated protein like 5-4 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001041331.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/Swiss-Prot
      Q0V8T3
      UniProtKB/TrEMBL
      F1LMS4
      Related
      ENSRNOP00000105237.1, ENSRNOT00000164324.1
      Conserved Domains (6) summary
      smart00231
      Location:30 → 174
      FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain
      cd00057
      Location:63 → 173
      FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
      cd00110
      Location:792 → 936
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
      pfam00008
      Location:550 → 581
      EGF; EGF-like domain
      pfam02210
      Location:395 → 521
      Laminin_G_2; Laminin G domain
      pfam12955
      Location:960 → 1027
      DUF3844; Domain of unknown function (DUF3844)

    2. NM_001415869.2 → NP_001402798.1  contactin-associated protein like 5-4 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8L2QLT5, F1LMS4
      Related
      ENSRNOP00000110758.1, ENSRNOT00000165044.1

    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_086031.1 Reference GRCr8

      Range
      3521265..4553884
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039090654.2 → XP_038946582.1  contactin-associated protein like 5-4 isoform X2

      Conserved Domains (4) summary
      cd00057
      Location:63 → 173
      FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
      pfam00008
      Location:551 → 582
      EGF; EGF-like domain
      pfam02210
      Location:209 → 338
      Laminin_G_2; Laminin G domain
      cl22861
      Location:793 → 844
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    2. XM_063272211.1 → XP_063128281.1  contactin-associated protein like 5-4 isoform X1

      UniProtKB/TrEMBL
      F1LMS4
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0V8T3.1 GenPept UniProtKB/Swiss-Prot:Q0V8T3
    Q0V8T4.1 GenPept UniProtKB/Swiss-Prot:Q0V8T4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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    Research Materials