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    Cldnd1 claudin domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288182, updated on 3-Apr-2024

    Summary

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    Official Symbol
    Cldnd1provided by RGD
    Official Full Name
    claudin domain containing 1provided by RGD
    Primary source
    RGD:1359273
    See related
    Ensembl:ENSRNOG00000001657 AllianceGenome:RGD:1359273
    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
    Summary
    Predicted to be located in apical plasma membrane. Orthologous to human CLDND1 (claudin domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 146.6), Muscle (RPKM 128.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    11q12
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (55352321..55358779, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (41883120..41889471, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (43986352..43992703, complement)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene olfactory receptor family 5 subfamily K member 1, pseudogene 1 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene G protein-coupled receptor 15 Neighboring gene coproporphyrinogen oxidase

    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. Levels of tight junction protein CLDND1 are regulated by microRNA-124 in the cerebellum of stroke-prone spontaneously hypertensive rats. Matsuoka H, et al. Biochem Biophys Res Commun, 2018 Apr 15. PMID 29530526
    2. Predicted expansion of the claudin multigene family. Mineta K, et al. FEBS Lett, 2011 Feb 18. PMID 21276448
    3. Quantitative proteomics identifies a Dab2/integrin module regulating cell migration. Teckchandani A, et al. J Cell Biol, 2009 Jul 13. PMID 19581412, Free PMC Article
    4. Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis. Na CH, et al. J Proteome Res, 2012 Sep 7. PMID 22871113, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. When miR-124 is increased, CLDND1 mRNA translation is downregulated in the brain.
      Title: Levels of tight junction protein CLDND1 are regulated by microRNA-124 in the cerebellum of stroke-prone spontaneously hypertensive rats.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC94479

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    claudin domain-containing protein 1

    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_001006955.2 → NP_001006956.2  claudin domain-containing protein 1

      See identical proteins and their annotated locations for NP_001006956.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A6IQK9, G3V674, Q5XIN0
      Conserved Domains (1) summary
      cl21598
      Location:17 → 234
      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
      55352321..55358779 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006248204.5 → XP_006248266.3  claudin domain-containing protein 1 isoform X1

    2. XM_006248206.5 → XP_006248268.1  claudin domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      Q5XIN0
      Conserved Domains (1) summary
      cl21598
      Location:40 → 257
      PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

    3. XM_063270411.1 → XP_063126481.1  claudin domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A6IQK9, G3V674
    Nucleotide Protein Strain
    Heading Accession and Version

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