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Aliases for CLDN9 Gene

Aliases for CLDN9 Gene

  • Claudin 9 2 3
  • Claudin-9 3

External Ids for CLDN9 Gene

Previous GeneCards Identifiers for CLDN9 Gene

  • GC16P003083
  • GC16P003096
  • GC16P003062
  • GC16P003064
  • GC16P003002
  • GC16P003035

Summaries for CLDN9 Gene

Entrez Gene Summary for CLDN9 Gene

  • This gene encodes a member of the claudin family. Claudins are integral membrane proteins and components of tight junction strands. Tight junction strands serve as a physical barrier to prevent solutes and water from passing freely through the paracellular space between epithelial or endothelial cell sheets, and also play critical roles in maintaining cell polarity and signal transductions. This protein is one of the entry cofactors for hepatitis C virus. Mouse studies revealed that this gene is required for the preservation of sensory cells in the hearing organ and the gene deficiency is associated with deafness. [provided by RefSeq, Jun 2010]

GeneCards Summary for CLDN9 Gene

CLDN9 (Claudin 9) is a Protein Coding gene. Diseases associated with CLDN9 include endolymphatic hydrops and gastric adenocarcinoma. Among its related pathways are Integrin Pathway and Cell junction organization. GO annotations related to this gene include identical protein binding and structural molecule activity. An important paralog of this gene is CLDN4.

UniProtKB/Swiss-Prot for CLDN9 Gene

  • Plays a major role in tight junction-specific obliteration of the intercellular space, through calcium-independent cell-adhesion activity (By similarity). May act as a coreceptor for HCV entry into hepatic cells.

Gene Wiki entry for CLDN9 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLDN9 Gene

Genomics for CLDN9 Gene

Regulatory Elements for CLDN9 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CLDN9 Gene

Start:
3,012,456 bp from pter
End:
3,014,505 bp from pter
Size:
2,050 bases
Orientation:
Plus strand

Genomic View for CLDN9 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CLDN9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLDN9 Gene

Proteins for CLDN9 Gene

  • Protein details for CLDN9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95484-CLD9_HUMAN
    Recommended name:
    Claudin-9
    Protein Accession:
    O95484
    Secondary Accessions:

    Protein attributes for CLDN9 Gene

    Size:
    217 amino acids
    Molecular mass:
    22848 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CLDN9 Gene

Proteomics data for CLDN9 Gene at MOPED

Post-translational modifications for CLDN9 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CLDN9 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for CLDN9 Gene

Domains for CLDN9 Gene

Gene Families for CLDN9 Gene

HGNC:

Protein Domains for CLDN9 Gene

Suggested Antigen Peptide Sequences for CLDN9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O95484

UniProtKB/Swiss-Prot:

CLD9_HUMAN :
  • O95484
Family:
  • Belongs to the claudin family.
genes like me logo Genes that share domains with CLDN9: view

Function for CLDN9 Gene

Molecular function for CLDN9 Gene

GENATLAS Biochemistry: claudin 9,clostridium perfringens enterotoxin receptor,integral membrane protein,claudin family of major structural components of tight junction (TJ) strands
UniProtKB/Swiss-Prot Function: Plays a major role in tight junction-specific obliteration of the intercellular space, through calcium-independent cell-adhesion activity (By similarity). May act as a coreceptor for HCV entry into hepatic cells.

Gene Ontology (GO) - Molecular Function for CLDN9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
GO:0042802 identical protein binding ISS --
genes like me logo Genes that share ontologies with CLDN9: view
genes like me logo Genes that share phenotypes with CLDN9: view

Animal Model Products

miRNA for CLDN9 Gene

miRTarBase miRNAs that target CLDN9

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLDN9

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for CLDN9 Gene

Localization for CLDN9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLDN9 Gene

Cell junction, tight junction. Cell membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CLDN9 Gene COMPARTMENTS Subcellular localization image for CLDN9 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for CLDN9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005923 bicellular tight junction ISS --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLDN9: view

Pathways for CLDN9 Gene

genes like me logo Genes that share pathways with CLDN9: view

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Interacting Proteins for CLDN9 Gene

Gene Ontology (GO) - Biological Process for CLDN9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016032 viral process IEA --
GO:0016338 calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules ISS --
GO:0034329 cell junction assembly TAS --
GO:0045216 cell-cell junction organization TAS --
GO:0070830 bicellular tight junction assembly TAS --
genes like me logo Genes that share ontologies with CLDN9: view

Compounds for CLDN9 Gene

(1) HMDB Compounds for CLDN9 Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with CLDN9: view

Transcripts for CLDN9 Gene

mRNA/cDNA for CLDN9 Gene

(2) Selected AceView cDNA sequences:
(4) Additional mRNA sequences :
(1) REFSEQ mRNAs :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLDN9 Gene

Claudin 9:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLDN9

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLDN9 Gene

No ASD Table

Relevant External Links for CLDN9 Gene

GeneLoc Exon Structure for
CLDN9
ECgene alternative splicing isoforms for
CLDN9

Expression for CLDN9 Gene

mRNA expression in normal human tissues for CLDN9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLDN9 Gene

This gene is overexpressed in Whole Blood (12.2), Pituitary (9.2), Brain - Cerebellum (7.0), and Brain - Cerebellar Hemisphere (6.9).

SOURCE GeneReport for Unigene cluster for CLDN9 Gene Hs.296949

mRNA Expression by UniProt/SwissProt for CLDN9 Gene

O95484-CLD9_HUMAN
Tissue specificity: Expressed in the liver, in peripheral blood mononuclear cells and hepatocarcinoma cell lines.
genes like me logo Genes that share expressions with CLDN9: view

In Situ Assay Products

No data available for Protein expression for CLDN9 Gene

Orthologs for CLDN9 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLDN9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLDN9 35
  • 99.08 (n)
  • 99.08 (a)
CLDN9 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CLDN9 35
  • 91.71 (n)
  • 96.31 (a)
CLDN9 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CLDN9 35
  • 90.17 (n)
  • 96.77 (a)
CLDN9 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cldn9 35
  • 86.94 (n)
  • 97.24 (a)
Cldn9 16
Cldn9 36
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CLDN9 36
  • 93 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cldn9 35
  • 87.56 (n)
  • 97.24 (a)
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 64 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii cldnc 35
  • 62.37 (n)
  • 62.21 (a)
Species with no ortholog for CLDN9:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLDN9 Gene

ENSEMBL:
Gene Tree for CLDN9 (if available)
TreeFam:
Gene Tree for CLDN9 (if available)

Paralogs for CLDN9 Gene

Selected SIMAP similar genes for CLDN9 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CLDN9: view

Variants for CLDN9 Gene

Sequence variations from dbSNP and Humsavar for CLDN9 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type MAF
rs1548539 -- 3,010,625(-) AAAAA(A/T)ATATA upstream-variant-2KB
rs2023913 -- 3,010,542(-) GAGGT(A/G)GGAGG upstream-variant-2KB
rs2227269 -- 3,013,263(+) CCTTC(C/T)CCCTC utr-variant-5-prime
rs2231605 -- 3,012,552(+) GAGGC(A/G)GCTGG utr-variant-5-prime
rs2231606 -- 3,012,647(+) ACCCC(C/T)GATCC utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for CLDN9 Gene

Variant ID Type Subtype PubMed ID
nsv905162 CNV Gain 21882294
nsv905170 CNV Loss 21882294
dgv2575n71 CNV Loss 21882294
dgv2576n71 CNV Loss 21882294
nsv509588 CNV Insertion 20534489
nsv510673 CNV Loss 20534489
nsv905185 CNV Loss 21882294
dgv2577n71 CNV Loss 21882294
dgv2578n71 CNV Loss 21882294
nsv905193 CNV Loss 21882294
dgv2579n71 CNV Loss 21882294

Relevant External Links for CLDN9 Gene

HapMap Linkage Disequilibrium report
CLDN9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLDN9 Gene

Disorders for CLDN9 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (5) Diseases for CLDN9 Gene including...

Search for CLDN9 Gene in MalaCards »

(1) University of Copenhagen DISEASES for CLDN9 Gene

Relevant External Links for CLDN9

Genetic Association Database (GAD)
CLDN9
Human Genome Epidemiology (HuGE) Navigator
CLDN9
genes like me logo Genes that share disorders with CLDN9: view

No data available for UniProtKB/Swiss-Prot for CLDN9 Gene

Publications for CLDN9 Gene

  1. Analysis of a human gene homologous to rat ventral prostate.1 protein. (PMID: 9441748) Peacock R.E. … Inglehearn C.F. (Genomics 1997) 2 3
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  3. Claudin-6 and claudin-9 function as additional coreceptors for hepatitis C virus. (PMID: 17804490) Zheng A. … Deng H. (J. Virol. 2007) 3 4
  4. The tight junction proteins claudin-1, -6, and -9 are entry cofactors for hepatitis C virus. (PMID: 18234789) Meertens L. … Dragic T. (J. Virol. 2008) 2 3
  5. Association between genetic variants in VEGF, ERCC3 and occupational benzene haematotoxicity. (PMID: 19773279) Hosgood H.D. … Lan Q. (Occup Environ Med 2009) 3 48

Products for CLDN9 Gene

Sources for CLDN9 Gene

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