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

SLC30A9 Gene

protein-coding   GIFtS: 49
GCID: GC04P041992

solute carrier family 30 (zinc transporter), member 9

(Previous name: chromosome 4 open reading frame 1 )
(Previous symbol: C4orf1)
 Explore 1 disease affiliated with
SLC30A9 via our new
 Human Malady Compendium 
Biological research products
for SLC30A9
    

(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 30 (Zinc Transporter), Member 91 2     Chromosome 4 Open Reading Frame 11
C4orf11 2 3 5     Expressed In Human Embryonic Lung2
HUEL1 2 3 5     GRIP1-Dependent Nuclear Receptor Coactivator2
GAC631 2     Zinc Transporter 92
ZNT91 2     ZnT-93
Human Embryonic Lung Protein2 3     HuEL3
Solute Carrier Family 30 Member 92 3     ZnT-93

External Ids:    HGNC: 13291   Entrez Gene: 104632   Ensembl: ENSG000000148247   OMIM: 6046045   UniProtKB: Q6PML93   

Export aliases for SLC30A9 gene to outside databases

Previous GC identifers: GC04P041842 GC04P041908 GC04P041834 GC04P041687 GC04P041314


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

UniProtKB/Swiss-Prot: ZNT9_HUMAN, Q6PML9
Function: Plays a role in the p160 coactivator signaling pathway that mediates transcriptional activation by nuclear
receptors (By similarity). Plays a role in transcriptional activation of Wnt-responsive genes (By similarity)




(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 SLC30A9 gene promoter:
         Max1   ATF-2   COUP   GATA-1   c-Ets-1   AREB6   POU2F1   HFH-1   POU2F1a   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLC30A9 promoter sequence
   Search SABiosciences Chromatin IP Primers for SLC30A9

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLC30A9


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

Entrez Gene cytogenetic band: 4p13   Ensembl cytogenetic band:  4p13   HGNC cytogenetic band: 4p13

SLC30A9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC30A9 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P041992:  view genomic region     (about GC identifiers)

Start:
41,992,489 bp from pter      End:
42,089,551 bp from pter
Size:
97,063 bases      Orientation:
plus strand

(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: ZNT9_HUMAN, Q6PML9 (See protein sequence)
Recommended Name: Zinc transporter 9  
Size: 568 amino acids; 63515 Da
Subunit: Interacts with GRIP1, ESR1 and AR (By similarity)
Subcellular location: Membrane; Multi-pass membrane protein (Potential). Nucleus
Sequence caution: Sequence=AAP83846.1; Type=Miscellaneous discrepancy; Note=Unlikely isoform. Aberrant splice sites;
Sequence=AAY40966.1; Type=Erroneous gene model prediction;
1 PDB 3D structure from and Proteopedia for SLC30A9:
2ENK (3D)    
Secondary accessions: Q4W5B6 Q7Z5I7 Q8TBB2 Q9Y6R2

Explore the universe of human proteins at neXtProt for SLC30A9: NX_Q6PML9

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q6PML9

  • SLC30A9 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_006336.3  
    ENSEMBL proteins: 
     ENSP00000264451   ENSP00000423529  

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    Uscn Proteins for SLC30A9

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA10409434
    GO:0005856cytoskeleton IDA10409434
    GO:0016021integral to membrane IEA--


    SLC30A9 for ontologies           About GeneDecksing



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

    SLC30A9 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR009061 DNA-bd_dom_put
     IPR002524 Cation_efflux

    Graphical View of Domain Structure for InterPro Entry Q6PML9

    ProtoNet protein and cluster: Q6PML9

    1 Blocks protein family: IPB002524 Cation efflux protein

    UniProtKB/Swiss-Prot: ZNT9_HUMAN, Q6PML9
    Similarity: Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family. SLC30A subfamily


    (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: ZNT9_HUMAN, Q6PML9
    Function: Plays a role in the p160 coactivator signaling pathway that mediates transcriptional activation by nuclear
    receptors (By similarity). Plays a role in transcriptional activation of Wnt-responsive genes (By similarity)

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003682chromatin binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity NAS10409434
    GO:0008324cation transmembrane transporter activity IEA--
    GO:0016922ligand-dependent nuclear receptor binding IEA--


    SLC30A9 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for SLC30A9:
     Decreased number of cells in m 


    (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 SLC30A9

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    4 Interacting proteins for SLC30A9 (Q6PML93 ENSP000002644514) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NCOA2Q155963, ENSP000003999684I2D: score=2 STRING: ENSP00000399968
    ESR1P033723, ENSP000002062494I2D: score=2 STRING: ENSP00000206249
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006289nucleotide-excision repair TAS17349999
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent ----
    GO:0006829zinc ion transport IEA--
    GO:0045944positive regulation of transcription from RNA polymerase II promoter IEA--


    SLC30A9 for ontologies           About GeneDecksing



    (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 SLC30A9
    Search CenterWatch for drugs/clinical trials and news about SLC30A9 / ZNT9 

    (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 SLC30A9 gene: 
    NM_006345.3  

    Unigene Cluster for SLC30A9:

    Solute carrier family 30 (zinc transporter), member 9
    Hs.479634  [show with all ESTs]
    Unigene Representative Sequence: NM_006345
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000264451(uc003gwl.3 uc011byx.2) ENST00000513699 ENST00000510460
    ENST00000509683 ENST00000505523

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    Additional cDNA sequence: 

    AF006621.2 AK225470.1 AK299917.1 AK312838.1 AY319413.1 AY594282.1 BC000240.1 BC007732.2 
    BC016949.1 BC022981.1 

    17 DOTS entries:

    DT.100797488  DT.316461  DT.309198  DT.121259379  DT.100797495  DT.121259383  DT.102828275  DT.40110163 
    DT.92065015  DT.95172168  DT.97777572  DT.121259399  DT.95357199  DT.121259355  DT.121259395  DT.121259401 
    DT.95172165 

    24/228 AceView cDNA sequences (see all 228):

    AA505196 BM874662 BG500806 AW137607 BM847413 AA828334 BM904650 AY594282 
    BM509951 BQ011700 BU521360 AA829952 BX487263 BC022981 BM764159 AW875891 
    BM458278 CB130966 BG501187 AA383091 C01695 AA427879 AI784609 AI702395 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for SLC30A9    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18a · 18b ^ 19
    SP1:                          -                                               -                                                           -         
    SP2:                                                                                                                                                
    SP3:                                                                                                                                                
    SP4:                                                                                                                                                
    SP5:                                                                                                                                                


    ECgene alternative splicing isoforms for SLC30A9

    (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

    SLC30A9 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGGACCCAAC

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

    About this image
    See SLC30A9 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SLC30A9

    SOURCE GeneReport for Unigene cluster: Hs.479634

    UniProtKB/Swiss-Prot: ZNT9_HUMAN, Q6PML9
    Tissue specificity: Ubiquitously expressed in fetal and adult tissues and cancer cell lines

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    In Situ
    Assay Products:
     

     
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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)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for SLC30A9 gene from 9/25 species (see all 25)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slc30a91 , 5 solute carrier family 30 (zinc transporter), member more1, 5 87.14(n)1
    88.85(a)1
      5 (36.02 cM)5
    1091081  NM_178651.31  NP_848766.21 
     673069555 
    chicken
    (Gallus gallus)
    Aves SLC30A91 solute carrier family 30 (zinc transporter), member more 74.67(n)
    79.21(a)
      422778  XM_420731.3  XP_420731.3 
    lizard
    (Anolis carolinensis)
    Reptilia SLC30A96
    --
    82(a)
    1 ↔ 1
    5(101124583-101150233)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia 1377257612   -- 77(n)    137725761 
    zebrafish
    (Danio rerio)
    Actinopterygii CF347753.12   -- 78.22(n)    CF347753.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG86321 CG8632 53.85(n)
    53.39(a)
      36393  NM_165933.1  NP_725207.1 
    worm
    (Caenorhabditis elegans)
    Secernentea Y71H2AM.91 Protein Y71H2AM.9 49.07(n)
    45.09(a)
      190608  NM_065202.5  NP_497603.3 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G516101 metal tolerance protein C4 49.04(n)
    39.21(a)
      841586  NM_104039.3  NP_564594.1 
    rice
    (Oryza sativa)
    Liliopsida --
    cation efflux family protein, putative, expressed
    32(a)
    1 ↔ 1
    4(13167450-13173774)


    ENSEMBL Gene Tree for SLC30A9 (if available)
    TreeFam Gene Tree for SLC30A9 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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): 5 variations for SLC30A9
         3 CNVs: 6260 98690 98689
         2 Indels: 27652 41656
    SABiosciences Cancer Mutation PCR Assays
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    (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

    SLC30A9 for disorders           About GeneDecksing

    OMIM gene information: 604604    OMIM disorders: --

    1 disease for SLC30A9:    About MalaCards
    prostatitis

    Human Genome Epidemiology (HuGE) Navigator: SLC30A9 (1 document)

    Export disorders for SLC30A9 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)
    About This Section

    PubMed articles for SLC30A9 gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with SLC30A9)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The novel human HUEL (C4orf1) gene maps to chromosome 4p12-p13 and encodes a nuclear protein containing the nuclear receptor interaction motif. (PubMed id 10409434)1, 2, 3, 9 Sim D.L.C. and Chow V.T.K. (1999)
    2. The novel human HUEL (C4orf1) protein shares homology with the DNA- binding domain of the XPA DNA repair protein and displays nuclear translocation in a cell cycle-dependent manner. (PubMed id 11906820)1, 3, 9 Sim D.L.C.... Chow V.T.K. (2002)
    3. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    4. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    5. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    6. Intracellular zinc homeostasis in leukocyte subsets is regulated by different expression of zinc exporters ZnT-1 to ZnT-9. (PubMed id 17971500)1 Overbeck S.... Rink L. (2008)
    7. Polymorphisms in mitochondrial genes and prostate can cer risk. (PubMed id 19064571)1 Wang L....Thibodeau S.N. (2008)
    8. Zinc transporter 2 (SLC30A2) can suppress the vesicular zinc defect of adaptor protein 3-depleted fibroblasts by promoting zinc accumulation in lysosomes. (PubMed id 17349999)1 Falcon-Perez J.M. and Dell'Angelica E.C. (2007)
    9. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W....Wilson R.K. (2005)
    10. GAC63, a GRIP1-dependent nuclear receptor coactivator. (PubMed id 15988012)1 Chen Y.H....Stallcup M.R. (2005)

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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: 10463 HGNC: 1329 AceView: SLC30A9 Ensembl:ENSG00000014824 euGenes: HUgn10463
    ECgene: SLC30A9 H-InvDB: SLC30A9

    (According to HUGE)
    About This Section
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for SLC30A9 Pharmacogenomics, SNPs, Pathways

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