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    Nectin4 nectin cell adhesion molecule 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 498281, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Nectin4provided by RGD
    Official Full Name
    nectin cell adhesion molecule 4provided by RGD
    Primary source
    RGD:1559826
    See related
    EnsemblRapid:ENSRNOG00000004029 AllianceGenome:RGD:1559826
    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
    Pvrl4; RGD1559826
    Summary
    Predicted to enable identical protein binding activity and receptor ligand activity. Predicted to be involved in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules; homophilic cell adhesion via plasma membrane adhesion molecules; and negative regulation of natural killer cell mediated cytotoxicity. Predicted to be located in plasma membrane. Predicted to be active in adherens junction. Orthologous to human NECTIN4 (nectin cell adhesion molecule 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 30.7), Kidney (RPKM 12.7) and 5 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nectin4 in Genome Data Viewer
    Location:
    13q24
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (86335027..86354152)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (83802589..83821711)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (89755665..89774185)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene nitrilase 1 Neighboring gene prefoldin subunit 2 Neighboring gene kelch domain containing 9 Neighboring gene Rho GTPase activating protein 30 Neighboring gene upstream transcription factor 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. Nectin ectodomain structures reveal a canonical adhesive interface. Harrison OJ, et al. Nat Struct Mol Biol, 2012 Sep. PMID 22902367, Free PMC Article
    2. E-cadherin interactome complexity and robustness resolved by quantitative proteomics. Guo Z, et al. Sci Signal, 2014 Dec 2. PMID 25468996, Free PMC Article
    3. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. Principe S, et al. Proteomics, 2013 May. PMID 23533145, Free PMC Article
    4. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables receptor ligand activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules 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 natural killer cell mediated cytotoxicity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in symbiont entry into host cell IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in adherens junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    nectin-4
    Names
    poliovirus receptor-related 4
    poliovirus receptor-related protein 4

    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_001109076.2 → NP_001102546.1  nectin-4 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001102546.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I5YBQ6, A6JFY9
      Related
      ENSRNOP00000077279.1, ENSRNOT00000101973.2
      Conserved Domains (3) summary
      cd00096
      Location:265 → 328
      Ig; Immunoglobulin domain
      cd05888
      Location:37 → 145
      IgV_1_Nectin-4_like; First immunoglobulin (Ig) domain of nectin-4, and similar domains
      cd07704
      Location:148 → 241
      IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains

    2. NM_001429807.1 → NP_001416736.1  nectin-4 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I5YBQ6, D3ZET1

    3. NM_001429808.1 → NP_001416737.1  nectin-4 isoform 3 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I5YBQ6, A6JFZ0

    4. NM_001429809.1 → NP_001416738.1  nectin-4 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I5YBQ6, D3ZET1

    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
      86335027..86354152
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039090983.2 → XP_038946911.1  nectin-4 isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y5A1, A0A8I5YBQ6
      Related
      ENSRNOP00000076530.1, ENSRNOT00000110850.2
      Conserved Domains (3) summary
      cd00096
      Location:265 → 328
      Ig; Immunoglobulin domain
      cd05888
      Location:37 → 145
      IgV_1_Nectin-4_like; First immunoglobulin (Ig) domain of nectin-4, and similar domains
      cd07704
      Location:148 → 241
      IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains

    2. XM_017598898.3 → XP_017454387.1  nectin-4 isoform X1

      Related
      ENSRNOP00000005550.4, ENSRNOT00000005550.8
      Conserved Domains (3) summary
      cd00096
      Location:265 → 328
      Ig; Immunoglobulin domain
      cd05888
      Location:37 → 145
      IgV_1_Nectin-4_like; First immunoglobulin (Ig) domain of nectin-4, and similar domains
      cd07704
      Location:148 → 241
      IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains

    3. XM_039090982.2 → XP_038946910.1  nectin-4 isoform X1

      Conserved Domains (3) summary
      cd00096
      Location:265 → 328
      Ig; Immunoglobulin domain
      cd05888
      Location:37 → 145
      IgV_1_Nectin-4_like; First immunoglobulin (Ig) domain of nectin-4, and similar domains
      cd07704
      Location:148 → 241
      IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains

    4. XM_006250256.5 → XP_006250318.1  nectin-4 isoform X3

      Conserved Domains (3) summary
      cd00096
      Location:265 → 328
      Ig; Immunoglobulin domain
      cd05888
      Location:37 → 145
      IgV_1_Nectin-4_like; First immunoglobulin (Ig) domain of nectin-4, and similar domains
      cd07704
      Location:148 → 241
      IgC1_2_Nectin-3-4_like; Second immunoglobulin (Ig) domain of nectin-3 and nectin-4 (poliovirus receptor related protein 4), and similar domains; member of the C1-set of Ig superfamily (IgSF) domains
    Nucleotide Protein Strain
    Heading Accession and Version

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