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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CLCN3 Gene

protein-coding   GIFtS: 59
GCID: GC04P170541

chloride channel, voltage-sensitive 3

(Previous name: chloride channel 3 )
 Explore 17 diseases affiliated with
CLCN3 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for CLCN3    

Aliases
for CLCN3 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Chloride Channel, Voltage-Sensitive 31 2     Chloride Channel Protein 32 3
ClC-31 2 3     Chloride Transporter ClC-32 3
CLC31 2     H(+)/Cl(-) Exchange Transporter 32
Chloride Channel 31 2     

External Ids:    HGNC: 20211   Entrez Gene: 11822   Ensembl: ENSG000001095727   OMIM: 6005805   UniProtKB: P517903   

Export aliases for CLCN3 gene to outside databases

Previous GC identifers: GC04P171346 GC04P170970 GC04P171126 GC04P171237 GC04P170916 GC04P170778 GC04P166296


Summaries
for CLCN3 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for CLCN3:
This gene encodes a member of the voltage-gated chloride channel (ClC) family. The encoded protein is present in all
cell types and localized in plasma membranes and in intracellular vesicles. It is a multi-pass membrane protein which
contains a ClC domain and two additional C-terminal CBS (cystathionine beta-synthase) domains. The ClC domain
catalyzes the selective flow of Cl- ions across cell membranes, and the CBS domain may have a regulatory function.
This protein plays a role in both acidification and transmitter loading of GABAergic synaptic vesicles, and in smooth
muscle cell activation and neointima formation. This protein is required for lysophosphatidic acid (LPA)-activated Cl-
current activity and fibroblast-to-myofibroblast differentiation. The protein activity is regulated by
Ca(2+)/calmodulin-dependent protein kinase II (CaMKII) in glioma cells. Multiple alternatively spliced transcript
variants encoding different isoforms have been identified. (provided by RefSeq, Aug 2011)

UniProtKB/Swiss-Prot: CLCN3_HUMAN, P51790
Function: Mediates the exchange of chloride ions against protons. Functions as antiporter and contributes to the
acidification of the endosome and synaptic vesicle lumen, and may thereby affect vesicle trafficking and exocytosis.
May play an important role in neuronal cell function through regulation of membrane excitability by protein kinase C.
It could help neuronal cells to establish short-term memory

Gene Wiki entry for CLCN3


Genomic Views
for CLCN3 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000004.11  NC_018915.1  NT_016354.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CLCN3 gene promoter:
         AhR   Sox5   FOXC1   AML1a   FOXD3   POU3F2 (N-Oct-5b)   Cdc5   ATF6   C/EBPalpha   Gfi-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): CLCN3 promoter sequence
   Search SABiosciences Chromatin IP Primers for CLCN3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CLCN3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 4q33   Ensembl cytogenetic band:  4q33   HGNC cytogenetic band: 4q

CLCN3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CLCN3 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P170541:  view genomic region     (about GC identifiers)

Start:
 170,533,784 bp from pter      End:
 170,644,824 bp from pter
Size:
 111,041 bases      Orientation:
 plus strand

Proteins
for CLCN3 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: CLCN3_HUMAN, P51790 (See protein sequence)
Recommended Name: H(+)/Cl(-) exchange transporter 3  
Size: 818 amino acids; 90966 Da
Subunit: Homo- or heterodimer. Isoform 2 interacts with GOPC, PDZK1 and SLC9A3R1/EBP50
Subcellular location: Isoform 1: Membrane; Multi-pass membrane protein. Early endosome membrane; Multi-pass membrane
protein. Late endosome membrane; Multi-pass membrane protein. Cytoplasmic vesicle, secretory vesicle membrane;
Multi-pass membrane protein (By similarity). Note=Isoform 1 is localized mainly in early and late endosomes
Subcellular location: Isoform 2: Membrane; Multi-pass membrane protein. Early endosome membrane; Multi-pass membrane
protein. Late endosome membrane; Multi-pass membrane protein. Golgi apparatus membrane; Multi-pass membrane protein.
Note=Isoform 2 partially colocalized with isoform 1 but is mainly enriched in the Golgi
Miscellaneous: The CLC channel family contains both chloride channels and proton-coupled anion transporters that
exchange chloride or another anion for protons. The presence of conserved gating glutamate residues is typical for
family members that function as antiporters (By similarity)
Sequence caution: Sequence=BAC54560.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=CAA55281.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: B7Z932 D3DP34 O14918 Q86Z21
Alternative splicing: 3 isoforms:  P51790-1   P51790-2   P51790-4   

Explore the universe of human proteins at neXtProt for CLCN3: NX_P51790

Post-translational modifications:

  • N-glycosylated1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P51790

    • CLCN3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (4 alternative transcripts): 
    NP_001230301.1  NP_001230303.1  NP_001820.2  NP_776297.2  

    ENSEMBL proteins: 
     ENSP00000425160   ENSP00000424603   ENSP00000261514   ENSP00000353857   ENSP00000425823  
     ENSP00000425323   ENSP00000422678   ENSP00000424540  
    Reactome Protein details: P51790
    Human Recombinant Protein Products: 
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    Novus Biologicals CLCN3 Protein
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    Uscn Proteins for CLCN3

    Gene Ontology (GO): 5/12 cellular component terms (GO ID links to tree view) (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139Golgi membrane IEA--
    GO:0005769early endosome IDA12471024
    GO:0005770late endosome IDA12471024
    GO:0005794Golgi apparatus IDA12471024
    GO:0009986cell surface NAS12471024


    CLCN3 for ontologies           About GeneDecksing



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    Uscn Antibodies for CLCN3
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    Uscn ELISAs and CLIAs for CLCN3

    Protein Domains /
    Families
    for CLCN3 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    CLCN3 for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR014743 Cl-channel_core
     IPR000644 Cysta_beta_synth_core
     IPR002245 Cl_channel-3
     IPR001807 Cl-channel_volt-gated

    Graphical View of Domain Structure for InterPro Entry P51790

    ProtoNet protein and cluster: P51790

    3 Blocks protein families:
    IPB000644 CBS domain
    IPB001807 Chloride channel signature
    IPB002245 CLC-3 chloride channel signature


    UniProtKB/Swiss-Prot: CLCN3_HUMAN, P51790
    Domain: Isoform 2 contains a C-terminal PDZ-binding motif mediating the interaction with GOPC
    Similarity: Belongs to the chloride channel (TC 2.A.49) family. ClC-3/CLCN3 subfamily
    Similarity: Contains 2 CBS domains


    Function
    for CLCN3 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         UniProtKB/Swiss-Prot: CLCN3_HUMAN, P51790
    Function: Mediates the exchange of chloride ions against protons. Functions as antiporter and contributes to the
    acidification of the endosome and synaptic vesicle lumen, and may thereby affect vesicle trafficking and exocytosis.
    May play an important role in neuronal cell function through regulation of membrane excitability by protein kinase C.
    It could help neuronal cells to establish short-term memory

         Genatlas biochemistry entry for CLCN3:
    chloride voltage-gated channel 3,expressed in tissues derived from neuroectoderm

    miRNA
    Products:            		miRTarBase miRNAs that target CLCN3:
    hsa-mir-1 (MIRT002737)

    OriGene 3'-UTR Clone (see all 2): CLCN3
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CLCN3
    8/18 QIAGEN miScript miRNA Assays for microRNAs that regulate CLCN3 (see all 18):
    hsa-miR-3673 hsa-miR-16-2* hsa-miR-539 hsa-miR-578 hsa-miR-583 hsa-miR-23a hsa-miR-24 hsa-miR-613
    SwitchGear 3'UTR luciferase reporter plasmid: CLCN3 3' UTR sequence
    Inhib. RNA
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    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for CLCN3

    Clone
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    Cell Line
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    Search LifeMap BioReagents cell lines for CLCN3

    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLCN3

    Gene Ontology (GO): 5/10 molecular function terms (GO ID links to tree view) (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005216ion channel activity ----
    GO:0005244voltage-gated ion channel activity ----
    GO:0005247voltage-gated chloride channel activity IEA--
    GO:0005254chloride channel activity TAS12471024
    GO:0005515protein binding IPI12471024


    CLCN3 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for CLCN3:
     Cells with protrusions 

    Animal Models:
         Mouse knock-outs for CLCN3: Clcn3tm1Tjj Clcn3tm1Lamb Clcn3tm1Suc
         13 MGI mutant phenotypes (inferred from 3 alleles) (MGI details for Clcn3):
     adipose tissue  behavior/neurological  digestive/alimentary  growth/size  homeostasis/metabolism 
     immune system  liver/biliary system  mortality/aging  nervous system  renal/urinary system 
     reproductive system  skeleton  vision/eye 

    CLCN3 for phenotypes           About GeneDecksing


    Pathways & Interactions
    for CLCN3 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Activation of cAMP-Dependent PKA
    		Activation of cAMP-Dependent PKA1.00
    		PKA Signaling0.56
    		cAMP Pathway0.77
    2Ion channel transport
    		Ion channel transport1.00
    		Stimuli-sensing channels0.49
    3Hepatic ABC Transporters
    		Hepatic ABC Transporters1.00
    4SLC-mediated transmembrane transport
    		Transmembrane transport of small molecules0.50
    5Neuropathic Pain-Signaling in Dorsal Horn Neurons
    		Cholera Infection0.40

    Pathway sources
    See GeneCards unified pathways
    Show all pathways

    5 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for CLCN3
        Cholera Infection
    Hepatic ABC Transporters
    PKA Signaling
    cAMP Pathway
    Activation of cAMP-Dependent PKA

    3        Reactome Pathways for CLCN3
        Transmembrane transport of small molecules
    Stimuli-sensing channels
    Ion channel transport



    CLCN3 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for CLCN3

    STRING Interaction Network Preview (showing 5 interactants - click image to see more details)

    5/7 Interacting proteins for CLCN3 (P517902, 3 ENSP000002615144) via UniProtKB, MINT, STRING, and/or I2D (see all 7)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GOPCQ9HD262, 3, ENSP000003574844MINT-1783634 MINT-1790205 I2D: score=3 STRING: ENSP00000357484
    SLC9A3R1O147452, 3, ENSP000002626134MINT-1783705 MINT-1783541 I2D: score=3 STRING: ENSP00000262613
    CFTRP135692, 3, ENSP000000030844MINT-1783848 I2D: score=1 STRING: ENSP00000003084
    PDZK1Q5T2W12, 3, ENSP000003421434MINT-1783611 MINT-1783832 MINT-1790188 I2D: score=3 STRING: ENSP00000342143
    CLCN3P517902MINT-1783371 MINT-1783519 MINT-1783481
    About this table

    Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006810transport TAS7665160
    GO:0006811ion transport ----
    GO:0006821chloride transport ----
    GO:0006885regulation of pH TAS12471024
    GO:0034765regulation of ion transmembrane transport ----


    CLCN3 for ontologies           About GeneDecksing



    Drugs & Compounds
    for CLCN3 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    CLCN3 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
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    Browse Tocris compounds for CLCN3

    1 HMDB Compound for CLCN3    About this table
    CompoundSynonyms CAS #PubMed Ids
    ChlorineCl2 (see all 13)16887-00-6--
    6 Novoseek chemical compound relationships for CLCN3 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    chloride 78.3 42 12916350 (4), 11278960 (3), 15127135 (3), 18359479 (3) (see all 17)
    dids 68 3 17360969 (1)
    thapsigargin 41.1 5 16520896 (2)
    nadph 33.8 1 17673675 (1)
    calcium 0 3 11278960 (1), 20139089 (1)
    superoxide 0 4 17360969 (2)

    Search CenterWatch for drugs/clinical trials and news about CLCN3 

    Transcripts
    for CLCN3 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for CLCN3 gene (4 alternative transcripts): 
    NM_001243372.1  NM_001243374.1  NM_001829.3  NM_173872.3  

    Unigene Cluster for CLCN3:

    Chloride channel, voltage-sensitive 3
    Hs.481186  [show with all ESTs]
    Unigene Representative Sequence: NM_173872
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000511092 ENST00000513761(uc003ish.3 uc003isi.3 uc011cka.2 uc011cjz.2 uc003isj.2)
    ENST00000347613 ENST00000360642 ENST00000512813 ENST00000506924 ENST00000507875
    ENST00000502998 ENST00000515420 ENST00000504131

    miRNA
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    8/18 QIAGEN miScript miRNA Assays for microRNAs that regulate CLCN3 (see all 18):
    hsa-miR-3673 hsa-miR-16-2* hsa-miR-539 hsa-miR-578 hsa-miR-583 hsa-miR-23a hsa-miR-24 hsa-miR-613
    SwitchGear 3'UTR luciferase reporter plasmid: CLCN3 3' UTR sequence
    Inhib. RNA
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    Additional cDNA sequence: 

    AB019542.1 AF029346.1 AF086418.1 AF172729.1 AK127483.1 AK304362.1 AL117599.1 BC026256.1 
    BC054877.1 BC058818.1 BC136510.1 BX647119.1 X78520.1 

    19 DOTS entries:

    DT.451815  DT.100040100  DT.101973138  DT.101961549  DT.100788498  DT.100788495  DT.97803884  DT.91695921 
    DT.102828744  DT.99956924  DT.100788493  DT.97856779  DT.100662492  DT.121268695  DT.91843148  DT.92424602 
    DT.95235314  DT.99987740  DT.92462664 

    24/368 AceView cDNA sequences (see all 368):

    BX100642 AI073875 CA942666 R79874 BU782966 CA397918 AA404449 AA772842 
    F05436 AF029346 AW452271 BQ270516 BM806547 BQ084323 CA866318 AA417185 
    BM676149 BQ188458 CA941048 N67594 BP351668 AW248103 BC054877 AA931548 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for CLCN3 (see all 7)    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18a · 18b
    SP1:              -                 -     -                                   -                                                                           
    SP2:              -                 -     -                                   -                                                           -               
    SP3:                                                                          -                                                                           
    SP4:                                                                                                                                                      
    SP5:                                                                                                                                                      


    ECgene alternative splicing isoforms for CLCN3

    Expression
    for CLCN3 gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CLCN3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CACCACAACA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image
    See CLCN3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CLCN3

    SOURCE GeneReport for Unigene cluster: Hs.481186

    UniProtKB/Swiss-Prot: CLCN3_HUMAN, P51790
    Tissue specificity: Expressed primarily in tissues derived from neuroectoderm. Within the brain, its expression is
    particularly evident in the hippocampus, olfactory cortex, and olfactory bulb. Highly expressed in aortic and coronary
    vascular smooth muscle cells, and aortic endothelial cells. Also expressed in tracheal and alveolar epithelial cells,
    and intima and media of the pulmonary vessels. Expressed in bronchus and colon (at protein level)

        SABiosciences Expression via Pathway-Focused PCR Array including CLCN3: 
              Neuronal Ion Channels in human mouse rat

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    Orthologs
    for CLCN3 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the last universal common ancestor (LUCA).

    Orthologs for CLCN3 gene from 10/33 species (see all 33)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Clcn31 , 5 chloride channel 31, 5 92.3(n)1
    98.61(a)1    		   8 (30.90 cM)5
    127251  NM_173874.11  NP_776299.11 
     609103895 
    chicken
    (Gallus gallus)    		 Aves CLCN31 chloride channel 3 87.3(n)
    98.04(a)    		   422432  XM_420400.3  XP_420400.2 
    lizard
    (Anolis carolinensis)    		 Reptilia CLCN36
    		 --
    		 96(a)
    		 1 ↔ 1
    		 GL343216.1(735272-800470)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Clcn32 putative chloride channel ClC-3 75.51(n)    Y09941.2 
    zebrafish
    (Danio rerio)    		 Actinopterygii Dr.103032 Transcribed sequence with moderate similarity to protein more 73.4(n)    57043120 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG52843
    ClC-c1    		 chloride channel3
    Chloride channel-c1    		 59(a)3
    60.71(n)1
    63.55(a)1    		   72D53
    397591  NM_168650.21  NP_730105.31 
    worm
    (Caenorhabditis elegans)    		 Secernentea clh-51 Protein CLH-5 56.97(n)
    55.11(a)    		   174449  NM_063539.4  NP_495940.1 
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons CLCF6
    CLCE6
    		 chloride channel protein CLC-e
    		 11(a)
    11(a)
    		 possible ortholog
    possible ortholog
    		 1(20787134-20791189)
    4(16835986-16839375)
    rice
    (Oryza sativa)    		 Liliopsida --
    --
    (see all 3)    		 chloride transporter, chloride channel family, put...
    chloride transporter, chloride channel family, put...
    (see all 3)    		 12(a)
    11(a)
    (see all 3)    		 possible ortholog
    possible ortholog
    (see all 3)    		 1(29215854-29220762)
    8(24636296-24642903)
    E. coli
    (Escherichia coli)    		 Gamma proteobacteria clcA6
    clcB6
    		 chloride channel, voltage-gated
    		 17(a)
    16(a)
    		 many → 1
    possible ortholog
    		 Chromosome(175107-176528)
    Chromosome(1663339-1664595)


    ENSEMBL Gene Tree for CLCN3 (if available)
    TreeFam Gene Tree for CLCN3 (if available) 

    Paralogs
    for CLCN3 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CLCN3 gene
    CLCN42  CLCNKB2  CLCN62  CLCN52  CLCN12  CLCN72  CLCNKA2  CLCN22  
    4 SIMAP similar genes for CLCN3 using alignment to 7 protein entries:     CLCN3_HUMAN (see all proteins):
    CLCN5    CLCN4    CLCN1    KIAA1651

    CLCN3 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for CLCN3
    PGOHUM00000235971


    Genomic Variants
    for CLCN3 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section
    SABiosciences Cancer Mutation PCR Assays
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    Disorders / Diseases
    for CLCN3 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    CLCN3 for disorders           About GeneDecksing

    OMIM gene information: 600580    OMIM disorders: --

    17 diseases for CLCN3:    About MalaCards
    cystic fibrosis    allergic rhinitis    bronchial asthma    malignant glioma
    rhinitis    osteopetrosis    nephrolithiasis    epididymitis
    fibrosis    prostate cancer    asthma    hepatocellular carcinoma
    nasopharyngitis    prostatitis    carcinoma    retinitis
    neuronitis

    5 Novoseek disease relationships for CLCN3 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    cystic fibrosis 42.7 3 10932070 (1), 10087150 (1)
    glioma 23.6 5 20139089 (3), 12843258 (2)
    carcinoma 0 1 15947107 (1)
    prostate cancer 0 1 15256454 (1)
    cancer 0 2 15127135 (1), 18359479 (1)


    Export disorders for CLCN3 gene to outside databases

    Publications
    for CLCN3 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for CLCN3 gene, integrated from 9 sources (see all 76):
    (articles sorted by number of sources associating them with CLCN3)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. The PDZ-binding chloride channel ClC-3B localizes to the Golgi and associates with cystic fibrosis transmembrane conductance regulator- interacting PDZ proteins. (PubMed id 12471024)1, 2, 9 Gentzsch M.... Riordan J.R. (2003)
    2. ClC-3B, a novel ClC-3 splicing variant that interacts with EBP50 and facilitates expression of CFTR-regulated ORCC. (PubMed id 11967229)1, 2 Ogura T.... Inagaki N. (2002)
    3. Regulation of human CLC-3 channels by multifunctional Ca2+/calmodulin-dependent protein kinase. (PubMed id 11274166)1, 2 Huang P....Nelson D.J. (2001)
    4. Expression of CLCN voltage-gated chloride channel genes in human blood vessels. (PubMed id 10198195)1, 2 Lamb F.S....Schutte B.C. (1999)
    5. Ion transporters and receptors in cDNA libraries from lens and cornea epithelia. (PubMed id 9678416)1, 2 Shepard A.R. and Rae J.L. (1998)
    6. Characterization of a human and murine gene (CLCN3) sharing similarities to voltage-gated chloride channels and to a yeast integral membrane protein. (PubMed id 7665160)1, 2 Borsani G.... Ballabio A. (1995)
    7. ClC-3 is required for LPA-activated Cl- current activity and fibroblast-to-myofibroblast differentiation. (PubMed id 18077605)1, 9 Yin Z....Watsky M.A. (2008)
    8. Molecular interaction and functional regulation of Cl C-3 by Ca2+/calmodulin-dependent protein kinase II (CaMKII) in human malignant glioma. (PubMed id 20139089)1, 9 Cuddapah V.A. and Sontheimer H. (2010)
    9. Possible role of transforming growth factor beta and interleukin-4 in the up-regulation of CLC-2 and CLC-3 in chronic rhinosinusitis. (PubMed id 17882904)1, 9 Li H....Xu G. (2007)
    10. Overexpression of CLC-3 in HEK293T cells yields novel currents that are pH dependent. (PubMed id 17977943)1, 9 Matsuda J.J....Lamb F.S. (2008)

    External Searches for CLCN3 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  
      Query String
    		PubMed
    OMIM
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      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing CLCN3 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 1182 HGNC: 2021 AceView: CLCN3 Ensembl:ENSG00000109572 euGenes: HUgn1182
    ECgene: CLCN3 H-InvDB: CLCN3

    Other Databases showing CLCN3 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing CLCN3 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CLCN3 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for CLCN3 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for CLCN3 gene:
    Search GeneIP for patents involving CLCN3

    GeneCards and IP:
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