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

SLC10A4 Gene

protein-coding   GIFtS: 47
GCID: GC04P048485

solute carrier family 10 (sodium/bile acid cotransporter...
 Explore 1 disease affiliated with
SLC10A4 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SLC10A4    

Aliases
for SLC10A4 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Solute Carrier Family 10 (Sodium/Bile Acid Cotransporter Family), Member
41 2
     P42
Solute Carrier Family 10 Member 42 3     Bile Acid Transporter SLC10A42
Na(+)/Bile Acid Cotransporter 42 3     Sodium/Bile Acid Cotransporter 42
MGC298021     

External Ids:    HGNC: 229801   Entrez Gene: 2017802   Ensembl: ENSG000001452487   UniProtKB: Q96EP93   

Export aliases for SLC10A4 gene to outside databases

Previous GC identifers: GC04P048335 GC04P048400 GC04P048326 GC04P048180 GC04P047805


Summaries
for SLC10A4 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
  --

Genomic Views
for SLC10A4 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_006238.11  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SLC10A4 gene promoter:
         Max1   AML1a   HOXA3   Evi-1   HNF-1A   FAC1   HFH-1   HNF-1   MRF-2   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SLC10A4 promoter sequence
   Search SABiosciences Chromatin IP Primers for SLC10A4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLC10A4


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

Entrez Gene cytogenetic band: 4p11   Ensembl cytogenetic band:  4p11   HGNC cytogenetic band: 4p12

SLC10A4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC10A4 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P048485:  view genomic region     (about GC identifiers)

Start:
 48,485,360 bp from pter      End:
 48,491,541 bp from pter
Size:
 6,182 bases      Orientation:
 plus strand

Proteins
for SLC10A4 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: NTCP4_HUMAN, Q96EP9 (See protein sequence)
Recommended Name: Sodium/bile acid cotransporter 4  
Size: 437 amino acids; 46504 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Secondary accessions: Q8WUZ2

Explore the universe of human proteins at neXtProt for SLC10A4: NX_Q96EP9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q96EP9

    • SLC10A4 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_689892.1  
    ENSEMBL proteins: 
     ENSP00000273861  

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    Uscn Proteins for SLC10A4

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--


    SLC10A4 for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for SLC10A4 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SLC10A4 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR002657 BilAc/Na_symport

    Graphical View of Domain Structure for InterPro Entry Q96EP9

    ProtoNet protein and cluster: Q96EP9

    1 Blocks protein family: IPB002657 Bile acid:sodium symporter

    UniProtKB/Swiss-Prot: NTCP4_HUMAN, Q96EP9
    Similarity: Belongs to the bile acid:sodium symporter (BASS) (TC 2.A.28) family


    Function
    for SLC10A4 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
    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SLC10A4
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    Inhib. RNA
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    In Situ Assay
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008508bile acid:sodium symporter activity IEA--


    SLC10A4 for ontologies           About GeneDecksing



    Pathways & Interactions
    for SLC10A4 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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLC10A4

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for SLC10A4 (ENSP000002738614) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Drugs & Compounds
    for SLC10A4 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SLC10A4

    1 HMDB Compound for SLC10A4    About this table
    CompoundSynonyms CAS #PubMed Ids
    SodiumSodium (see all 2)7440-23-5--
    Search CenterWatch for drugs/clinical trials and news about SLC10A4 / NTCP4 

    Transcripts
    for SLC10A4 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 SLC10A4 gene: 
    NM_152679.3  

    Unigene Cluster for SLC10A4:

    Solute carrier family 10 (sodium/bile acid cotransporter family), member 4
    Hs.132591  [show with all ESTs]
    Unigene Representative Sequence: NM_152679
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000273861(uc003gyc.2)

    miRNA
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    7 QIAGEN miScript miRNA Assays for microRNAs that regulate SLC10A4:
    hsa-miR-140-3p hsa-miR-576-5p hsa-miR-205* hsa-miR-26a hsa-miR-4263 hsa-miR-26b hsa-miR-1297
    SwitchGear 3'UTR luciferase reporter plasmid: SLC10A4 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SLC10A4 (see all 7)
    OriGene shRNA RFP: SLC10A4
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    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SLC10A4
    Clone
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    Primer
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    Additional cDNA sequence: 

    AK126542.1 AY704414.1 BC012048.1 BC019066.2 

    2 DOTS entries:

    DT.97762654  DT.100716078 

    20 AceView cDNA sequences:

    BX369076 BC019066 BF312464 BC012048 AK126542 AI418669 NM_152679 AI421729 
    BE439637 AL522530 BE260783 AI031855 BE439690 AA776274 BI198043 AI421796 
    AL530028 AL522529 AL563624 BU940291 

    GeneLoc Exon Structure


    Expression
    for SLC10A4 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

    SLC10A4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAACAATTCT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    SLC10A4 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    6 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    EyeInner Nuclear LayerCholinergic Amacrine CellsAmacrine, Retina
    Spinal CordSpinal Ventral ColumnsVentral Spinal Cord Progenitor CellsMotor Neurons
    BrainMedulla OblongataBrain
    Neural TubeMetencephalonNeural Tube
    Neural TubeTelencephalonNeural Tube
    Spinal CordSpinal Ventral ColumnsSpinal Cord
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Primitive gut tube-like cells (A scalable, suspensi...)

    See SLC10A4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SLC10A4

    SOURCE GeneReport for Unigene cluster: Hs.132591
        SABiosciences Custom PCR Arrays for SLC10A4
    Primer
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    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLC10A4

    Orthologs
    for SLC10A4 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 common ancestor of eukaryotes.

    Orthologs for SLC10A4 gene from 5/16 species (see all 16)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves SLC10A41 solute carrier family 10 (sodium/bile acid cotransporter more 69.93(n)
    71.79(a)    		   770263  XM_001233593.2  XP_001233594.2 
    lizard
    (Anolis carolinensis)    		 Reptilia SLC10A46
    		 --
    		 70(a)
    		 1 ↔ 1
    		 GL343293.1(868768-874743)
    zebrafish
    (Danio rerio)    		 Actinopterygii Dr.155802 Transcribed sequence with weak similarity to protein more 75.57(n)    BM316761.1 
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons AT1G785606
    AT4G228406
    (see all 5)    		 putative sodium-bile acid cotransporter
    (see all 5)    		 17(a)
    17(a)
    (see all 5)    		 possible ortholog
    possible ortholog
    (see all 5)    		 1(29546605-29548824)
    4(11991497-11993770)
    rice
    (Oryza sativa)    		 Liliopsida --
    --
    (see all 5)    		 bile acid sodium symporter family protein, putativ...
    bile acid sodium symporter family protein, putativ...
    (see all 5)    		 19(a)
    18(a)
    (see all 5)    		 possible ortholog
    possible ortholog
    (see all 5)    		 12(3572432-3575996)
    4(18503977-18509124)


    ENSEMBL Gene Tree for SLC10A4 (if available)
    TreeFam Gene Tree for SLC10A4 (if available) 

    Paralogs
    for SLC10A4 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SLC10A4 gene
    SLC10A32  SLC10A62  SLC10A12  SLC10A22  SLC10A52  
    3 SIMAP similar genes for SLC10A4 using alignment to 1 protein entry:     NTCP4_HUMAN:
    SLC10A2    SLC10A6    SLC10A1

    SLC10A4 for paralogs           About GeneDecksing



    Genomic Variants
    for SLC10A4 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

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for SLC10A4
         1 CNV: 4393
    SABiosciences Cancer Mutation PCR Assays
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    DNA2.0 Custom Variant and Variant Library Synthesis for SLC10A4

    Disorders / Diseases
    for SLC10A4 gene

    (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.)
    About This Section
    SLC10A4 for disorders           About GeneDecksing

    1 disease for SLC10A4:    About MalaCards
    neuronitis


    Export disorders for SLC10A4 gene to outside databases

    Publications
    for SLC10A4 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 SLC10A4 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SLC10A4)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    3. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    4. Cloning and expression of SLC10A4, a putative organic anion transport protein. (PubMed id 17106928)1 Splinter P.L....LaRusso N.F. (2006)
    5. The solute carrier family SLC10: more than a family of bile acid transporters regarding function and phylogenetic relationships. (PubMed id 16541252)1 Geyer J....Petzinger E. (2006)
    6. 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. (2002)
    7. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
    8. Cloning and molecular characterization of the orphan carrier protein Slc10a4: expression in cholinergic neurons of the rat central nervous system. (PubMed id 18355966)9 Geyer J....Petzinger E. (2008)

    External Searches for SLC10A4 gene

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

    Genome Databases showing SLC10A4 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 201780 HGNC: 22980 AceView: SLC10A4 Ensembl:ENSG00000145248 euGenes: HUgn201780
    ECgene: SLC10A4 H-InvDB: SLC10A4

    Other Databases showing SLC10A4 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SLC10A4 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 SLC10A4 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SLC10A4 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SLC10A4 gene:
    Search GeneIP for patents involving SLC10A4

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for SLC10A4 gene

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    Advanced Cell Diagnostics
    About This Section

     
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    von Willebrand factor
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