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SLC22A13 Gene

protein-coding   GIFtS: 50
GCID: GC03P038307

Solute Carrier Family 22 (Organic Anion/Urate Transporter),...

(Previous names: organic cationic transporter-like 3, solute carrier family...)
(Previous symbol: ORCTL3)
  Search for SLC22A13
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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Aliases
Solute Carrier Family 22 (Organic Anion/Urate Transporter), Member
131 2
     OAT102
ORCTL31 2 3     OCTL12
Organic Cationic Transporter-Like 31 2     OCTL32
Solute Carrier Family 22 (Organic Anion Transporter), Member 131 2     Organic-Cation Transporter Like 32
Organic Cation Transporter-Like 32 3     Solute Carrier Family 22 Member 132
ORCTL-32 3     Solute Carrier Family 22, Member 132

External Ids:    HGNC: 84941   Entrez Gene: 93902   Ensembl: ENSG000001729407   OMIM: 6040475   UniProtKB: Q9Y2263   

Export aliases for SLC22A13 gene to outside databases

Previous GC identifers: GC00U912985 GC03P038267 GC03P038282


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SLC22A13 Gene:
This gene encodes a member of the organic-cation transporter family. It is located in a gene cluster with another
member of the family, organic cation transporter like 4. The encoded protein is a transmembrane protein involved
in the transport of small molecules. This protein can function to mediate urate uptake and is a high affinity
nicotinate exchanger in the kidneys and the intestine. (provided by RefSeq, Sep 2008)

GeneCards Summary for SLC22A13 Gene:
SLC22A13 (solute carrier family 22 (organic anion/urate transporter), member 13) is a protein-coding gene. GO annotations related to this gene include organic cation transmembrane transporter activity. An important paralog of this gene is SLC22A11.




(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 at NCBI GenBank:
NC_000003.11  NT_022517.19  NC_018914.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SLC22A13 gene promoter:
         USF1   AML1a   USF-1   HNF-1   IRF-7A   HNF-1A   Evi-1   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLC22A13 promoter sequence
   Search Chromatin IP Primers for SLC22A13

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLC22A13


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

Entrez Gene cytogenetic band: 3p21.3   Ensembl cytogenetic band:  3p22.2   HGNC cytogenetic band: 3p22.2

SLC22A13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC22A13 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P038307:  view genomic region     (about GC identifiers)

Start:
38,307,298 bp from pter      End:
38,319,806 bp from pter
Size:
12,509 bases      Orientation:
plus 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, 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: S22AD_HUMAN, Q9Y226 (See protein sequence)
Recommended Name: Solute carrier family 22 member 13  
Size: 551 amino acids; 60862 Da
Secondary accessions: B2RCV9 Q8IYG1
Alternative splicing: 2 isoforms:  Q9Y226-1   Q9Y226-2   

Explore the universe of human proteins at neXtProt for SLC22A13: NX_Q9Y226

Explore proteomics data for SLC22A13 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn57, Asn61, Asn92, Asn104
  • Modification sites at PhosphoSitePlus

  • See SLC22A13 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_004247.2  
    ENSEMBL proteins: 
     ENSP00000310241   ENSP00000395106   ENSP00000406929  

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    (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: Organic cation transporter-like 3
    Orphan or poorly characterized SLC22 family members

    3 InterPro protein domains:
     IPR005828 Sub_transporter
     IPR020846 MFS_dom
     IPR016196 MFS_dom_general_subst_transpt

    Graphical View of Domain Structure for InterPro Entry Q9Y226

    ProtoNet protein and cluster: Q9Y226

    UniProtKB/Swiss-Prot: S22AD_HUMAN, Q9Y226
    Similarity: Belongs to the major facilitator (TC 2.A.1) superfamily. Organic cation transporter (TC 2.A.1.19)
    family


    Find genes that share domains with SLC22A13           About GenesLikeMe


    (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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0015101organic cation transmembrane transporter activity NAS10072596
    GO:0022857transmembrane transporter activity ----
    GO:0090416nicotinate transporter activity IDA18411268
         
    Find genes that share ontologies with SLC22A13           About GenesLikeMe


    Animal Models:
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    miRNA
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    miRTarBase miRNAs that target SLC22A13:
    hsa-mir-26b-5p (MIRT029224)

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    2 qRT-PCR Assays for microRNAs that regulate SLC22A13:
    hsa-miR-1252 hsa-miR-26b*
    SwitchGear 3'UTR luciferase reporter plasmidSLC22A13 3' UTR sequence
    Inhib. RNA
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    (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
    S22AD_HUMAN, Q9Y226: Membrane; Multi-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005887integral component of plasma membrane NAS10072596
    GO:0016021integral component of membrane ----
    GO:0016324apical plasma membrane IDA18411268
    GO:0070062extracellular vesicular exosome IDA19056867

    Find genes that share ontologies with SLC22A13           About GenesLikeMe


    (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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SLC22A13
    Interactions:

        Search GeneGlobe Interaction Network for SLC22A13

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    3 Interacting proteins for SLC22A13 (ENSP000003102414) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATG4AENSP000003613064STRING: ENSP00000361306
    ATG4BENSP000003842594STRING: ENSP00000384259
    SIL1ENSP000002651954STRING: ENSP00000265195
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0015695organic cation transport NAS10072596
    GO:0015747urate transport IDA10072596
    GO:0055085transmembrane transport ----
    GO:2001142nicotinate transport IDA18411268

    Find genes that share ontologies with SLC22A13           About GenesLikeMe



    (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 SLC22A13 (S22AD)



    (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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SLC22A13 gene: 
    NM_004256.3  

    Unigene Cluster for SLC22A13:

    Solute carrier family 22 (organic anion transporter), member 13
    Hs.225941  [show with all ESTs]
    Unigene Representative Sequence: NM_004256
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000311856(uc011aym.1 uc011ayn.1 uc003chz.3) ENST00000415844
    ENST00000450935
    miRNA
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    2 qRT-PCR Assays for microRNAs that regulate SLC22A13:
    hsa-miR-1252 hsa-miR-26b*
    SwitchGear 3'UTR luciferase reporter plasmidSLC22A13 3' UTR sequence
    Inhib. RNA
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      QuantiFast Probe-based Assays in human, mouse, rat SLC22A13

    Additional mRNA sequence: 

    AB010438.1 AK315301.1 

    2 DOTS entries:

    DT.100000451  DT.75193280 

    11 AceView cDNA sequences:

    NM_004256 BI517655 AB010438 BC035973 BE326882 AI934403 BF589890 BF510842 
    BF476068 BG432776 BI518368 

    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for SLC22A13    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10
    SP1:                                                                        
    SP2:                    -                                                   


    ECgene alternative splicing isoforms for SLC22A13

    (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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    SLC22A13 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CAGGGTGAGG
    SLC22A13 Expression
    About this image


    SLC22A13 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 5) fully expand
     
     Brain (Nervous System)    fully expand to see all 6 entries
             Cerebral Cortex
     
     Neural Tube (Nervous System)    fully expand to see all 3 entries
             Metencephalon
     
     Kidney (Urinary System)
             Metanephros
     
     Thymus (Hematopoietic System)
             Thymus
     
     Gut Tube (Gastrointestinal Tract)
             Foregut
    SLC22A13 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SLC22A13 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.225941

    UniProtKB/Swiss-Prot: S22AD_HUMAN, Q9Y226
    Tissue specificity: Ubiquitous, expressed at low levels

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    In Situ
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    (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 SLC22A13 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slc22a131 , 5 solute carrier family 22 (organic cation transporter), more1, 5 79.13(n)1
    73.32(a)1
      9 (71.33 cM)5
    1025701  NM_133980.31  NP_598741.21 
     1191930025 
    chicken
    (Gallus gallus)
    Aves SLC22A131 solute carrier family 22 (organic anion transporter), more 58.74(n)
    50.75(a)
      420423  XM_418529.4  XP_418529.3 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    49(a)
    46(a)
    1 ↔ many
    1 ↔ many
    6(737567-752877)
    6(766807-782091)
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1536391 zgc:153639 53.74(n)
    47.5(a)
      556601  NM_001077372.2  NP_001070840.2 


    ENSEMBL Gene Tree for SLC22A13 (if available)
    TreeFam Gene Tree for SLC22A13 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SLC22A13 gene
    SLC22A112  SLC22A52  SLC22A82  SLC22A12  SLC22A242  SLC22A42  SLC22A22  SLC22A102  
    SLC22A92  SLC22A62  SLC22A152  SLC22A122  SLC22A72  SLC22A162  SLC22A32  SLC22A252  
    Selected SIMAP similar genes for SLC22A13 using alignment to 3 protein entries:     S22AD_HUMAN (see all proteins) (see all similar genes):
    SLC22A14    SLC22A15    SLC22A8    SLC22A6    HMFN2567    SLC22A12
    SLC22A25    SLC22A7    SLC22A11    OAT7    SLC22A10    SLC22A20
    SLC22A9    SLC22A2    SLC22A1    SLC22A24    SLC22A3    SLC22A4

    Find genes that share paralogs with SLC22A13           About GenesLikeMe



    (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 SLC22A13 (see all 364)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs787253441,2
    F--38305450(+) AATTGT/GACACC 1 -- us2k11Minor allele frequency- G:0.04NA 120
    rs1489669841,2
    --38305481(+) GAGACC/GATCCT 1 -- us2k10--------
    rs1442824461,2
    C--38305495(+) CCTAGA/GTGGGG 1 -- us2k10--------
    rs1154638531,2
    C,F--38305509(+) TTGAGG/AGCCAG 1 -- us2k11Minor allele frequency- A:0.04WA 118
    rs730628781,2
    C,F--38305979(+) TGGCCA/CGGGCT 1 -- us2k11Minor allele frequency- C:0.02NA 120
    rs1465574731,2
    C--38306143(+) GGTGGA/GGGCAT 1 -- us2k10--------
    rs98500461,2
    C,F--38306147(+) GAGGCC/ATACTT 1 -- us2k11Minor allele frequency- A:0.50WA 2
    rs2029901,2
    C,H--38306200(+) GGTACT/GTGCAT 1 -- us2k116Minor allele frequency- G:0.00EA NA WA CSA 128
    rs1888486351,2
    --38306299(+) GTTTGC/TCTTTG 1 -- us2k10--------
    rs760593961,2
    C,F--38306623(+) TGTCTC/GATTTG 1 -- us2k12Minor allele frequency- G:0.03WA NA 238

    HapMap Linkage Disequilibrium report for SLC22A13 (38307298 - 38319806 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for SLC22A13:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv3769CNV Insertion18451855
    nsv528237CNV Loss19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SLC22A13
    DNA2.0 Custom Variant and Variant Library Synthesis for SLC22A13

    (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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    OMIM gene information: 604047    OMIM disorders: --


    Find genes that share disorders with SLC22A13           About GenesLikeMe

    Genetic Association Database (GAD): SLC22A13
    Human Genome Epidemiology (HuGE) Navigator: SLC22A13 (2 documents)

    Export disorders for SLC22A13 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 SLC22A13 gene, integrated from 10 sources (see all 13):
    (articles sorted by number of sources associating them with SLC22A13)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning, mapping, and characterization of two novel human genes, ORCTL3 and ORCTL4, bearing homology to organic-cation transporters. (PubMed id 10072596)1, 2, 3, 9 Nishiwaki T.... Nakamura Y. (Cytogenet. Cell Genet. 1998)
    2. Identification of a new urate and high affinity nicotinate transporter, hOAT10 (SLC22A13). (PubMed id 18411268)1, 3, 9 Bahn A....Burckhardt G. (J. Biol. Chem. 2008)
    3. Characterization of a 1200-kb genomic segment of chromosome 3p22- p21.3. (PubMed id 10231028)1, 2, 9 Daigo Y.... Nakamura Y. (DNA Res. 1999)
    4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    5. The effects of genetic polymorphisms in the organic cation transporters OCT1, OCT2, and OCT3 on the renal clearance of metformin. (PubMed id 19536068)1, 4 Tzvetkov M.V....BrockmAPller J. (Clin. Pharmacol. Ther. 2009)
    6. 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. (Genome Res. 2004)
    7. Isolation of ORCTL3 in a novel genetic screen for tumor-specific apoptosis inducers. (PubMed id 19282870)1, 9 Irshad S....Grimm S. (Cell Death Differ. 2009)
    8. SLC22A13 catalyses unidirectional efflux of aspartate and glutamate at the basolateral membrane of type A intercalated cells in the renal collecting duct. (PubMed id 24147638)1 Schulz C....GrA1ndemann D. (Biochem. J. 2014)
    9. Large-scale proteomics and phosphoproteomics of urinary exosomes. (PubMed id 19056867)1 Gonzales P.A....Knepper M.A. (J. Am. Soc. Nephrol. 2009)
    10. 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)

    (in PubMed, OMIM, and NCBI Bookshelf)
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      Query String
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 9390 HGNC: 8494 AceView: SLC22A13 Ensembl:ENSG00000172940 euGenes: HUgn9390
    ECgene: SLC22A13 H-InvDB: SLC22A13

    (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 SLC22A13 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 SLC22A13 gene:
    Search GeneIP for patents involving SLC22A13

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



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