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    Cldnd1 claudin domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 224250, updated on 19-Mar-2024

    Summary

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    Official Symbol
    Cldnd1provided by MGI
    Official Full Name
    claudin domain containing 1provided by MGI
    Primary source
    MGI:MGI:2447860
    See related
    Ensembl:ENSMUSG00000022744 AllianceGenome:MGI:2447860
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Cldn25; claudin-25; 1110019C08Rik
    Summary
    Located in apical plasma membrane. Is expressed in several structures, including brain; gut; heart; liver; and metanephros. Orthologous to human CLDND1 (claudin domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 32.2), CNS E18 (RPKM 29.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    16 C1.2; 16 34.83 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (58548269..58554610)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (58727910..58734247)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_41101 Neighboring gene coproporphyrinogen oxidase Neighboring gene STARR-positive B cell enhancer ABC_E10915 Neighboring gene STARR-positive B cell enhancer ABC_E11620 Neighboring gene STARR-positive B cell enhancer ABC_E8640 Neighboring gene G protein-coupled receptor 15 Neighboring gene STARR-positive B cell enhancer ABC_E5551 Neighboring gene predicted gene, 26019 Neighboring gene olfactory receptor family 5 subfamily K member 1B

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Claudin domain containing 1 contributing to endothelial cell adhesion decreases in presence of cerebellar hemorrhage. Ohnishi M, et al. J Neurosci Res, 2017 Oct. PMID 28244141
    2. Predicted expansion of the claudin multigene family. Mineta K, et al. FEBS Lett, 2011 Feb 18. PMID 21276448
    3. Comparative mapping of distal murine chromosome 11 and human 17q21.3 in a region containing a modifying locus for murine plasma von Willebrand factor level. Mohlke KL, et al. Genomics, 1998 Nov 15. PMID 9806826
    4. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. suggest that the transient decrease of CLDND1 after cerebellar hemorrhage is responsible for low-molecular-weight selective vascular hyperpermeability
      Title: Claudin domain containing 1 contributing to endothelial cell adhesion decreases in presence of cerebellar hemorrhage.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in apical plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    claudin domain-containing protein 1
    Names
    claudin 25

    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_001252450.1 → NP_001239379.1  claudin domain-containing protein 1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate internal splice site and initiates translation at an upstream, in-frame start codon, compared to variant 1. The encoded isoform (2) has a longer and distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AC159200
      Conserved Domains (1) summary
      cl21598
      Location:40 → 257
      PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

    2. NM_001252451.1 → NP_001239380.1  claudin domain-containing protein 1 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate internal splice site, lacks an exon in the 3' coding region and initiates translation at an upstream, in-frame start codon, compared to variant 1. The encoded isoform (3) is shorter and has a distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AC159200
      Conserved Domains (1) summary
      cl21598
      Location:150 → 210
      PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

    3. NM_001356488.1 → NP_001343417.1  claudin domain-containing protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC159200
      Consensus CDS
      CCDS28234.1
      UniProtKB/Swiss-Prot
      Q3U7C4, Q9CQX5
      UniProtKB/TrEMBL
      A0A811BIT5
      Conserved Domains (1) summary
      cl21598
      Location:17 → 234
      PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

    4. NM_171826.3 → NP_741968.1  claudin domain-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_741968.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AV368951, BC055695, BY122667, CA750661
      Consensus CDS
      CCDS28234.1
      UniProtKB/Swiss-Prot
      Q3U7C4, Q9CQX5
      UniProtKB/TrEMBL
      A0A811BIT5
      Related
      ENSMUSP00000125497.2, ENSMUST00000162057.8
      Conserved Domains (1) summary
      cl21598
      Location:17 → 234
      PMP22_Claudin; PMP-22/EMP/MP20/Claudin family

    RNA

    1. NR_045517.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an internal exon compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK152722, AV368951, BY122667

    2. NR_045518.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks two internal exons compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AI048668, AV368951, BC055695, BY122667, CD560460

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000082.7 Reference GRCm39 C57BL/6J

      Range
      58548269..58554610
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011245886.4 → XP_011244188.1  claudin domain-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011244188.1

      Conserved Domains (1) summary
      cl21598
      Location:127 → 187
      PMP22_Claudin; PMP-22/EMP/MP20/Claudin family
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CQX5.1 GenPept UniProtKB/Swiss-Prot:Q9CQX5

    Gene LinkOut

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

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