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    Cntn5 contactin 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 114589, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Cntn5provided by RGD
    Official Full Name
    contactin 5provided by RGD
    Primary source
    RGD:621302
    See related
    EnsemblRapid:ENSRNOG00000007038 AllianceGenome:RGD:621302
    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-2
    Summary
    Predicted to enable cell-cell adhesion mediator activity. Predicted to be involved in cell-cell adhesion and nervous system development. Predicted to act upstream of or within sensory perception of sound. Predicted to be located in side of membrane. Predicted to be active in GABA-ergic synapse; axon; and presynaptic membrane. Orthologous to human CNTN5 (contactin 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward (RPKM 39.3) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cntn5 in Genome Data Viewer
    Location:
    8q11
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (15017424..16249418, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (6735715..7967727, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (7812371..9033962, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene transfer RNA alanine (anticodon AGC) 60 Neighboring gene mitochondrial pyruvate carrier 1-like, pseudogene 2 Neighboring gene TATA element modulatory factor-like Neighboring gene uncharacterized LOC102548563 Neighboring gene prohibitin 1, pseudogene 18 Neighboring gene uncharacterized LOC134479992 Neighboring gene eukaryotic translation initiation factor 1 pseudogene Neighboring gene Serine/threonine-protein kinase Sgk1, pseudogene 1 Neighboring gene uncharacterized LOC120094309 Neighboring gene nucleophosmin 1, pseudogene 17 Neighboring gene heterogeneous nuclear ribonucleoprotein L, 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 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

    What's a GeneRIF?
    1. findings suggest that NB-2 plays a key role in maturation of glutamatergic synapses in the brainstem during the final stages of auditory development
      Title: Preferential localization of neural cell recognition molecule NB-2 in developing glutamatergic neurons in the rat auditory brainstem.
    Submit: New GeneRIF Correction

    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell adhesion NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in presynapse assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in presynapse assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sensory perception of sound IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in GABA-ergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in GABA-ergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    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-5
    Names
    neural recognition molecule NB-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_053746.1 → NP_446198.1  contactin-5 precursor

      See identical proteins and their annotated locations for NP_446198.1

      Status: PROVISIONAL

      Source sequence(s)
      D87212
      UniProtKB/Swiss-Prot
      P97527
      UniProtKB/TrEMBL
      A6JN62, F1M173
      Related
      ENSRNOP00000009418.8, ENSRNOT00000009418.9
      Conserved Domains (5) summary
      cd04969
      Location:496 → 568
      Ig5_Contactin_like; Fifth Ig domain of contactin
      smart00410
      Location:205 → 278
      IG_like; Immunoglobulin like
      cd00063
      Location:671 → 768
      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:480 → 568
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:98 → 191
      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_086026.1 Reference GRCr8

      Range
      15017424..16249418 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017595409.2 → XP_017450898.1  contactin-5 isoform X1

      UniProtKB/Swiss-Prot
      P97527
      UniProtKB/TrEMBL
      A6JN62, F1M173

    2. XM_017595411.3 → XP_017450900.1  contactin-5 isoform X2

      UniProtKB/TrEMBL
      F1M173
      Related
      ENSRNOP00000109036.1, ENSRNOT00000162546.1

    3. XM_017595408.3 → XP_017450897.1  contactin-5 isoform X1

      UniProtKB/Swiss-Prot
      P97527
      UniProtKB/TrEMBL
      A6JN62, F1M173

    4. XM_039080701.2 → XP_038936629.1  contactin-5 isoform X3

      Conserved Domains (3) summary
      cd00096
      Location:100 → 104
      Ig; Ig strand A [structural motif]
      cd04969
      Location:480 → 568
      Ig5_Contactin; Fifth immunoglobulin (Ig) domain of contactin
      cl11960
      Location:98 → 193
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P97527.1 GenPept UniProtKB/Swiss-Prot:P97527

    Gene LinkOut

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

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