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

Gene ID: 171554, updated on 11-Apr-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
Ensembl: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, Apr 2022]
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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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, ENSRNOT00000044238.4
    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

  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
    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

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Chemical Information
Molecular Biology Databases
Research Materials
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