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

Gene ID: 224250, updated on 2-Nov-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, Nov 2024]
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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See Cldnd1 in Genome Data Viewer
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 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 

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

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