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SLC9C2 Gene

protein-coding   GIFtS: 44
GCID: GC01M173470

Solute Carrier Family 9, Member C2 (Putative)

(Previous names: solute carrier family 9, isoform 11, solute carrier family...)
(Previous symbol: SLC9A11)
  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Solute Carrier Family 9, Member C2 (Putative)1 2     Solute Carrier Family 9, Isoform 111
SLC9A111 2 3     Solute Carrier Family 9, Member C21
Solute Carrier Family 9, Member 111 2     Sodium/Hydrogen Exchanger 112
Solute Carrier Family 9 Member C22 3     Solute Carrier Family 92
NHE-112 3     Solute Carrier Family 9 Member 113
Na(+)/H(+) Exchanger 112 3     

External Ids:    HGNC: 286641   Entrez Gene: 2845252   Ensembl: ENSG000001627537   UniProtKB: Q5TAH23   
ORGUL members:         

Export aliases for SLC9C2 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SLC9C2 Gene:
SLC9C2 (solute carrier family 9, member C2 (putative)) is a protein-coding gene. Diseases associated with SLC9C2 include pneumonia. GO annotations related to this gene include solute:hydrogen antiporter activity. An important paralog of this gene is SLC9C1.

UniProtKB/Swiss-Prot: SL9C2_HUMAN, Q5TAH2
Function: Involved in pH regulation (By similarity)

Gene Wiki entry for SLC9C2 (SLC9A11) 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000001.11  NC_018912.2  NT_004487.20  
Regulatory elements:
   Search for regulatory transcription factor binding sites for SLC9C2
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLC9C2 promoter sequence
   Search Chromatin IP Primers for SLC9C2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLC9C2


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

Entrez Gene cytogenetic band: 1q25.1   Ensembl cytogenetic band:  1q25.1   HGNC cytogenetic band: 1q25.1

SLC9C2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC9C2 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M173470:  view genomic region     (about GC identifiers)

Start:
173,469,603 bp from pter      End:
173,572,233 bp from pter
Size:
102,631 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SL9C2_HUMAN, Q5TAH2 (See protein sequence)
Recommended Name: Sodium/hydrogen exchanger 11  
Size: 1124 amino acids; 129053 Da
Secondary accessions: Q86UF3

Explore the universe of human proteins at neXtProt for SLC9C2: NX_Q5TAH2

Explore proteomics data for SLC9C2 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn447, Asn473

  • See SLC9C2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_848622.2  
    ENSEMBL proteins: 
     ENSP00000356687   ENSP00000445437  
    Reactome Protein details: Q5TAH2

    SLC9C2 Human Recombinant Protein Products:

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    SLC9C2 Assay Products:

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    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    SLC: Solute carriers

    IUPHAR Guide to PHARMACOLOGY protein family classification: Sodium/hydrogen exchanger 11
    SLC9 family of sodium/hydrogen exchangers

    Selected InterPro protein domains (see all 6):
     IPR006153 Cation/H_exchanger
     IPR018490 cNMP-bd-like
     IPR000595 cNMP-bd_dom
     IPR018422 Cation/H_exchanger_CPA1
     IPR027359 Channel_four-helix_dom

    Graphical View of Domain Structure for InterPro Entry Q5TAH2

    ProtoNet protein and cluster: Q5TAH2

    1 Blocks protein domain: IPB000595 Cyclic nucleotide-binding domain

    UniProtKB/Swiss-Prot: SL9C2_HUMAN, Q5TAH2
    Domain: Contains an ion transport-like region is related to the membrane segments of voltage-gated ion channels
    (By similarity)
    Similarity: Belongs to the monovalent cation:proton antiporter 1 (CPA1) transporter (TC 2.A.36) family
    Similarity: Contains 1 cyclic nucleotide-binding domain


    SLC9C2 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SL9C2_HUMAN, Q5TAH2
    Function: Involved in pH regulation (By similarity)

         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0015299solute:hydrogen antiporter activity IEA--
         
    SLC9C2 for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLC9C2
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       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SLC9C2

    miRNA
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLC9C2


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SL9C2_HUMAN, Q5TAH2: Membrane; Multi-pass membrane protein

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--

    SLC9C2 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    SuperPaths for SLC9C2 About    
    See pathways by source

    SuperPathContained pathways About
    1Ion channel transport
    Ion channel transport0.58
    Stimuli-sensing channels0.58
    2Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds
    Transmembrane transport of small molecules0.47

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for SLC9C2
        Stimuli-sensing channels



    SLC9C2 for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SLC9C2
    Interactions:

        Search GeneGlobe Interaction Network for SLC9C2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for SLC9C2 (ENSP000003566874) via UniProtKB, MINT, STRING, and/or I2D (see all 54)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ENSG00000228299ENSP000003978674STRING: ENSP00000397867
    NEXNENSP000003339384STRING: ENSP00000333938
    SEC63ENSP000003579984STRING: ENSP00000357998
    MOGSENSP000002336164STRING: ENSP00000233616
    SPCS1ENSP000002330254STRING: ENSP00000233025
    About this table

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006812cation transport ----
    GO:0006814sodium ion transport IEA--
    GO:0055085transmembrane transport ----

    SLC9C2 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SLC9C2 (SL9C2)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for SLC9C2 gene: 
    NM_178527.3  

    Unigene Cluster for SLC9C2:

    Solute carrier family 9, member C2 (putative)
    Hs.494981  [show with all ESTs]
    Unigene Representative Sequence: AL832631
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000367714(uc001giz.2 uc010pmq.1) ENST00000466087(uc009wwe.2)
    ENST00000479367 ENST00000476568 ENST00000536496
    miRNA
    Products:
         
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    Inhib. RNA
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    Primer
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      QuantiFast Probe-based Assays in human, mouse, rat SLC9C2

    Additional mRNA sequence: 

    AK128104.1 AK302731.1 AL832631.2 BC042592.1 BX648119.1 

    2 DOTS entries:

    DT.95101497  DT.99986389 

    18 AceView cDNA sequences:

    AA954546 AA398085 NM_178527 AA621275 AI027619 BC042592 BM979514 BX648119 
    AA634531 AA926665 AA724256 AK128104 BG773317 AA399386 CA440089 BU853927 
    BG482704 BQ428705 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for SLC9C2    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^
    SP1:                                      -                                         -                                                                           
    SP2:                                                                                            -                                                               
    SP3:              -           -                                                                                                                                 
    SP4:                                                                                                                                                            

    ExUns: 24 ^ 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30
    SP1:                                          
    SP2:                                          
    SP3:                                          
    SP4:                                          


    ECgene alternative splicing isoforms for SLC9C2

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SLC9C2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAATTTGTTA
    SLC9C2 Expression
    About this image

    SLC9C2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SLC9C2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.494981
        Custom PCR Arrays for SLC9C2
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLC9C2

    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for SLC9C2 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    rat
    (Rattus norvegicus)
    Mammalia Slc9c21 solute carrier family 9, member C2 (putative) 76.29(n)
    67.39(a)
      364029  XM_006250125.1  XP_006250187.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    33(a)
    1 → many
    1(75660752-75769510)


    ENSEMBL Gene Tree for SLC9C2 (if available)
    TreeFam Gene Tree for SLC9C2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SLC9C2 gene
    SLC9C12  
    2 SIMAP similar genes for SLC9C2 using alignment to 2 protein entries:     SL9C2_HUMAN (see all proteins):
    SLC9C1    SCN5A

    SLC9C2 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SLC9C2 (see all 1956)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs75484151,2
    C--173469328(+) atcatA/C/Taagaa 1 -- ds50010--------
    rs1461207861,2
    --173469384(+) CTATGA/GAGTAG 1 -- ds50010--------
    rs1836887001,2
    --173469467(+) CTTGGA/GCGAGA 1 -- ds50010--------
    rs1401026871,2
    --173469620(+) AAACTC/TAACTT 1 -- ut310--------
    rs1868600581,2
    --173469735(+) TACTGA/GAAGTT 1 -- ut310--------
    rs1917447661,2
    --173469838(+) AATTAC/TAACAA 1 -- ut310--------
    rs412645661,2
    F--173469862(+) AATTAC/TAGGTT 1 -- ut310--------
    rs1147083111,2
    C,F--173469885(+) GAGTAA/GCATAT 1 -- ut311Minor allele frequency- G:0.10WA 118
    rs1866084421,2
    --173470054(+) TTTACA/GGAAGT 1 -- ut310--------
    rs120654261,2
    C,F,H--173470105(+) TCAGTA/GGCTTC 1 -- ut31 ese322Minor allele frequency- G:0.31NS EA NA WA CSA 2348

    HapMap Linkage Disequilibrium report for SLC9C2 (173469603 - 173572233 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for SLC9C2: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SLC9C2
    DNA2.0 Custom Variant and Variant Library Synthesis for SLC9C2

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    1 disease for SLC9C2:    
    About MalaCards
    pneumonia


    SLC9C2 for disorders           About GeneDecksing


    Export disorders for SLC9C2 gene to outside databases

    (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)
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    PubMed articles for SLC9C2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SLC9C2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (Nature 2006)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 284525 HGNC: 28664 AceView: MGC43026 Ensembl:ENSG00000162753 euGenes: HUgn284525
    ECgene: SLC9C2 H-InvDB: SLC9C2

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SLC9C2 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SLC9C2 gene:
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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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