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Cldn1 claudin 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 65129, updated on 28-Oct-2024

Summary

Official Symbol
Cldn1provided by RGD
Official Full Name
claudin 1provided by RGD
Primary source
RGD:68422
See related
EnsemblRapid:ENSRNOG00000001926 AllianceGenome:RGD:68422
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
Summary
Predicted to enable identical protein binding activity and virus receptor activity. Involved in several processes, including cellular response to butyrate; cellular response to cytokine stimulus; and endothelial cell development. Located in apical plasma membrane; bicellular tight junction; and lateral plasma membrane. Biomarker of diabetic retinopathy; liver disease (multiple); and periodontitis. Human ortholog(s) of this gene implicated in Crohn's disease and atopic dermatitis. Orthologous to human CLDN1 (claudin 1). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Biased expression in Liver (RPKM 271.3), Kidney (RPKM 114.6) and 6 other tissues See more
Orthologs
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Genomic context

See Cldn1 in Genome Data Viewer
Location:
11q22
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (87926376..87941533)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (74421569..74436728)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (77815216..77830373)

Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene claudin 16 Neighboring gene poly(A) binding protein, cytoplasmic 4, pseudogene 2 Neighboring gene ribosomal protein L10, pseudogene 11 Neighboring gene activator of basal transcription 1, pseudogene 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

General gene information

Markers

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables structural molecule 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 bicellular tight junction assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in bicellular tight junction assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules ISO
Inferred from Sequence Orthology
more info
 
involved_in calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell junction maintenance ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell-cell junction organization ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to butyrate IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to lead ion IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to transforming growth factor beta stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to tumor necrosis factor IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to type II interferon IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in establishment of blood-nerve barrier IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in establishment of endothelial intestinal barrier IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in establishment of skin barrier ISO
Inferred from Sequence Orthology
more info
 
involved_in establishment of skin barrier ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in liver regeneration IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in positive regulation of bicellular tight junction assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of epithelial cell proliferation involved in wound healing ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of wound healing ISO
Inferred from Sequence Orthology
more info
 
involved_in protein complex oligomerization ISO
Inferred from Sequence Orthology
more info
 
involved_in response to dexamethasone IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to ethanol IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to interleukin-18 IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to toxic substance IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in symbiont entry into host cell IEA
Inferred from Electronic Annotation
more info
 
involved_in xenobiotic transport across blood-nerve barrier IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in apical plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in apical plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in basolateral plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in bicellular tight junction IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in bicellular tight junction IDA
Inferred from Direct Assay
more info
PubMed 
located_in bicellular tight junction ISO
Inferred from Sequence Orthology
more info
 
located_in bicellular tight junction ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cell junction ISO
Inferred from Sequence Orthology
more info
 
located_in cell-cell junction ISO
Inferred from Sequence Orthology
more info
 
located_in lateral plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in lateral plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
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
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
located_in tight junction ISO
Inferred from Sequence Orthology
more info
 

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_031699.3NP_113887.3  claudin-1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000011
    UniProtKB/Swiss-Prot
    P56745, Q6P6V9
    UniProtKB/TrEMBL
    A6JRZ0
    Related
    ENSRNOP00000002640.3, ENSRNOT00000002640.7
    Conserved Domains (1) summary
    pfam00822
    Location:5182
    PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

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_086029.1 Reference GRCr8

    Range
    87926376..87941533
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)