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    Cdhr5 cadherin-related family member 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171554, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cdhr5provided by RGD
    Official Full Name
    cadherin-related family member 5provided by RGD
    Primary source
    RGD:620504
    See related
    EnsemblRapid:ENSRNOG00000017762 AllianceGenome:RGD:620504
    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
    Mucdhl; Mupcdh
    Summary
    Enables calcium ion binding activity. Involved in cell adhesion. Located in clathrin-coated pit. Orthologous to human CDHR5 (cadherin related family member 5). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 269.0) and Adrenal (RPKM 21.2) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cdhr5 in Genome Data Viewer
    Location:
    1q41
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (205802686..205811184, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (196373110..196381609, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (214255118..214263848, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102553043 Neighboring gene PHD and ring finger domains 1 Neighboring gene interferon regulatory factor 7 Neighboring gene secretin Neighboring gene dopamine receptor D4

    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. mu-Protocadherin, a novel developmentally regulated protocadherin with mucin-like domains. Goldberg M, et al. J Biol Chem, 2000 Aug 11. PMID 10801787
    2. Cdx2 controls expression of the protocadherin Mucdhl, an inhibitor of growth and β-catenin activity in colon cancer cells. Hinkel I, et al. Gastroenterology, 2012 Apr. PMID 22202456
    3. Intestinal brush border assembly driven by protocadherin-based intermicrovillar adhesion. Crawley SW, et al. Cell, 2014 Apr 10. PMID 24725409, Free PMC Article
    4. Large-scale proteomics and phosphoproteomics of urinary exosomes. Gonzales PA, et al. J Am Soc Nephrol, 2009 Feb. PMID 19056867, Free PMC Article
    5. 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

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC114263

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables beta-catenin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables calcium ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cell adhesion molecule binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cell adhesion molecule binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in brush border assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell adhesion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cell adhesion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in intermicrovillar adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intermicrovillar adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of microvillus length ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of microvillus length ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in apical plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in brush border ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in brush border membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in brush border membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in clathrin-coated pit IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in microvillus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in microvillus membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in microvillus membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    cadherin-related family member 5
    Names
    GP100
    mu-protocadherin
    mucin and cadherin like
    mucin and cadherin-like protein

    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_138525.2 → NP_612534.1  cadherin-related family member 5 precursor

      See identical proteins and their annotated locations for NP_612534.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q4FZY9, Q9JIK1
      UniProtKB/TrEMBL
      A0A8I6AQ62, A6HXT3
      Related
      ENSRNOP00000044906.3, ENSRNOT00000044238.5
      Conserved Domains (4) summary
      pfam05568
      Location:547 → 631
      ASFV_J13L; African swine fever virus J13L protein
      cd11304
      Location:133 → 231
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam02389
      Location:507 → 649
      Cornifin; Cornifin (SPRR) family
      pfam13825
      Location:477 → 537
      Paramyxo_PNT; Paramyxovirus structural protein V/P N-terminus

    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_086019.1 Reference GRCr8

      Range
      205802686..205811184 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063277893.1 → XP_063133963.1  cadherin-related family member 5 isoform X1

      UniProtKB/TrEMBL
      A6HXT1

    2. XM_006230509.5 → XP_006230571.1  cadherin-related family member 5 isoform X2

      See identical proteins and their annotated locations for XP_006230571.1

      UniProtKB/TrEMBL
      A0A8I6ACD8, A6HXT1, A6HXT2
      Related
      ENSRNOP00000089658.1, ENSRNOT00000116628.2
      Conserved Domains (1) summary
      cd11304
      Location:133 → 231
      Cadherin_repeat; Cadherin tandem repeat domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JIK1.1 GenPept UniProtKB/Swiss-Prot:Q9JIK1

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials