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    Nectin1 nectin cell adhesion molecule 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 192183, updated on 9-Dec-2024

    Summary

    Official Symbol
    Nectin1provided by RGD
    Official Full Name
    nectin cell adhesion molecule 1provided by RGD
    Primary source
    RGD:620791
    See related
    EnsemblRapid:ENSRNOG00000006403 AllianceGenome:RGD:620791
    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
    HveC; Pvrl1; nectin-1
    Summary
    Enables carbohydrate binding activity and virion binding activity. Involved in axon guidance; regulation of synapse assembly; and symbiont entry into host cell. Located in dendrite and growth cone membrane. Human ortholog(s) of this gene implicated in cleft lip; cleft lip-palate-ectodermal dysplasia syndrome; cleft palate; and ectodermal dysplasia. Orthologous to human NECTIN1 (nectin cell adhesion molecule 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 45.4), Brain (RPKM 31.3) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Nectin1 in Genome Data Viewer
    Location:
    8q22
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (52998662..53061745)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (44101776..44164863)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (48094233..48198499)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108351687 Neighboring gene uncharacterized LOC120094131 Neighboring gene uncharacterized LOC134480041 Neighboring gene U6 spliceosomal RNA Neighboring gene uncharacterized LOC108351689

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables carbohydrate binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables cell adhesion mediator activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cell adhesion mediator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables cell adhesion molecule binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein-containing complex binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables signaling receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables virion binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables virus receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables virus receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in axon guidance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within camera-type eye morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cochlea morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within desmosome organization ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within enamel mineralization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within iron ion transport ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within lens morphogenesis in camera-type eye ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of viral entry into host cell ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein localization to cell junction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within protein localization to cell junction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of synapse assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of synapse organization EXP
    Inferred from Experiment
    more info
    PubMed 
    involved_in regulation of synapse organization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within retina development in camera-type eye ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in symbiont entry into host cell IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in symbiont entry into host cell ISO
    Inferred from Sequence Orthology
    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 apical junction complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in axon IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell-cell contact zone ISO
    Inferred from Sequence Orthology
    more info
     
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in growth cone membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in hippocampal mossy fiber to CA3 synapse ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in presynaptic active zone membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    nectin-1
    Names
    nectin)
    poliovirus receptor-related 1 (herpesvirus entry mediator C
    poliovirus receptor-related 1 (herpesvirus entry mediator C; nectin)
    poliovirus receptor-related protein 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001100476.1NP_001093946.1  nectin-1 precursor

      See identical proteins and their annotated locations for NP_001093946.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A6J3U6, F1LNP8
      Related
      ENSRNOP00000008614.6, ENSRNOT00000008614.9
      Conserved Domains (5) summary
      cd05890
      Location:146243
      IgC1_2_Nectin-1_like; Second immunoglobulin (Ig) domain of nectin-1, and similar domains; member of the C1-set of Ig superfamily (IgSF) domains
      pfam14575
      Location:355401
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
      cd00096
      Location:247253
      Ig; Ig strand A [structural motif]
      cd05886
      Location:31143
      IgV_1_Nectin-1_like; First immunoglobulin variable (IgV) domain of nectin-1, and similar domains
      cl11960
      Location:247333
      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
      52998662..53061745
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)