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ZXDA Gene

protein-coding   GIFtS: 51
GCID: GC0XM057949

Zinc Finger, X-Linked, Duplicated A

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(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
Zinc Finger, X-Linked, Duplicated A1 2
Zinc Finger Protein 8961 2
ZNF8962
Zinc Finger X-Linked Protein ZXDA2

External Ids:    HGNC: 131981   Entrez Gene: 77892   Ensembl: ENSG000001982057   OMIM: 3002355   UniProtKB: P981683   

Export aliases for ZXDA gene to outside databases

Previous GC identifers: GC0XM054714 GC0XM055912 GC0XM056539 GC0XM056902 GC0XM056900 GC0XM057817 GC0XM054990


(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 ZXDA Gene:
This gene encodes one of two duplicated zinc finger genes on chromosome Xp11. This gene is the telomeric copy;
GeneID 158586 ZXDB is the more centromeric copy. The two genes have 98% nucleotide sequence similarity, and the
predicted proteins contain 10 tandem zinc finger motifs. (provided by RefSeq, Nov 2009)

GeneCards Summary for ZXDA Gene:
ZXDA (zinc finger, X-linked, duplicated A) is a protein-coding gene. GO annotations related to this gene include C2H2 zinc finger domain binding and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is GTF3A.

UniProtKB/Swiss-Prot: ZXDA_HUMAN, P98168
Function: Cooperates with CIITA to promote transcription of MHC class I and MHC class II genes




(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_000023.10  NC_018934.2  NT_011630.15  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZXDA gene promoter:
         NF-1   NF-1/L   Nkx2-2   Lmo2   E47   Evi-1   HEN1   PPAR-gamma1   FOXO4   ARP-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZXDA promoter sequence
   Search Chromatin IP Primers for ZXDA

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


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

Entrez Gene cytogenetic band: Xp11.1   Ensembl cytogenetic band:  Xp11.21   HGNC cytogenetic band: Xp11.21

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

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM057949:  view genomic region     (about GC identifiers)

Start:
57,931,864 bp from pter      End:
57,937,067 bp from pter
Size:
5,204 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, 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: ZXDA_HUMAN, P98168 (See protein sequence)
Recommended Name: Zinc finger X-linked protein ZXDA  
Size: 799 amino acids; 84771 Da
Subunit: Self-associates. Interacts with ZXDC and CIITA
Sequence caution: Sequence=AAC37521.1; Type=Frameshift; Positions=753;
Secondary accessions: Q9UJP7

Explore the universe of human proteins at neXtProt for ZXDA: NX_P98168

Explore proteomics data for ZXDA at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

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

    REFSEQ proteins: NP_009087.1  
    ENSEMBL proteins: 
     ENSP00000351530  

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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:
    ZNF: Zinc fingers, C2H2-type

    3 InterPro protein domains:
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry P98168

    ProtoNet protein and cluster: P98168

    UniProtKB/Swiss-Prot: ZXDA_HUMAN, P98168
    Similarity: Belongs to the ZXD family
    Similarity: Contains 10 C2H2-type zinc fingers


    Find genes that share domains with ZXDA           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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: ZXDA_HUMAN, P98168
    Function: Cooperates with CIITA to promote transcription of MHC class I and MHC class II genes

         Genatlas biochemistry entry for ZXDA:
    zinc finger protein (C2H2 type),X linked,duplicated A

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity IMP17493635
    GO:0005515protein binding IPI17493635
    GO:0046872metal ion binding IEA--
    GO:0070742C2H2 zinc finger domain binding IPI17493635
         
    Find genes that share ontologies with ZXDA           About GenesLikeMe


    Animal Models:
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    Selected qRT-PCR Assays for microRNAs that regulate ZXDA (see all 18):
    hsa-miR-106a hsa-miR-340 hsa-miR-519a hsa-miR-183* hsa-miR-93 hsa-miR-24 hsa-miR-17 hsa-miR-526b*
    SwitchGear 3'UTR luciferase reporter plasmidZXDA 3' UTR sequence
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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
    ZXDA_HUMAN, P98168: Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    plasma membrane1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--

    Find genes that share ontologies with ZXDA           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 ZXDA
    Interactions:

        GeneGlobe Interaction Network for ZXDA

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for ZXDA (P981681, 3 ENSP000003515304) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ZXDCQ2QGD71, 3, ENSP000003743594EBI-1538980,EBI-1538838 I2D: score=1 STRING: ENSP00000374359
    CIITAP330761, 3, ENSP000003163284EBI-1538980,EBI-1538819 I2D: score=1 STRING: ENSP00000316328
    About this table

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0045893positive regulation of transcription, DNA-templated IMP17493635

    Find genes that share ontologies with ZXDA           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 ZXDA



    (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 ZXDA gene: 
    NM_007156.4  

    Unigene Cluster for ZXDA:

    Zinc finger, X-linked, duplicated A
    Hs.550094  [show with all ESTs]
    Unigene Representative Sequence: NM_007156
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000358697(uc004dve.3)
    miRNA
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    hsa-miR-106a hsa-miR-340 hsa-miR-519a hsa-miR-183* hsa-miR-93 hsa-miR-24 hsa-miR-17 hsa-miR-526b*
    SwitchGear 3'UTR luciferase reporter plasmidZXDA 3' UTR sequence
    Inhib. RNA
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      QuantiFast Probe-based Assays in human, mouse, rat ZXDA

    Additional mRNA sequence: 

    AK122815.1 AK292686.1 BC059356.1 L14787.1 

    2 DOTS entries:

    DT.101981193  DT.75158643 

    4 AceView cDNA sequences:

    L14787 AK122815 NM_007156 BC059356 

    GeneLoc Exon Structure


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


    ZXDA expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     NULL (Uncategorized)
             CD31, CD144 positive cells
    ZXDA Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZXDA Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.550094

    UniProtKB/Swiss-Prot: ZXDA_HUMAN, P98168
    Tissue specificity: May be expressed in brain, heart, kidney, liver, lung, muscle and placenta

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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)
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    This gene was present in the common ancestor of animals and fungi.

    Orthologs for ZXDA gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves --
    --
    49(a)
    1 → many
    12(10656611-10666374)
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    44(a)
    1 → many
    2(169122892-169230882)
    zebrafish
    (Danio rerio)
    Actinopterygii ZXDC6
    ZXD family zinc finger C
    26(a)
    1 → many
    6(23710138-23727533) ENSDARG00000052351
    fruit fly
    (Drosophila melanogaster)
    Insecta CG96096
    --
    22(a)
    1 → many
    X(16679398-16681011)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes ACE26
    SWI56
    Transcription factor required for septum destructi...
    Transcription factor that activates transcription ...
    8(a)
    7(a)
    many ↔ many
    many ↔ many
    XII(404510-406822) YLR131C
    IV(748613-750742) YDR146C
            Species with no ortholog for ZXDA

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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZXDA gene
    GTF3A2  ZXDC2  ZXDB2  
    4 SIMAP similar genes for ZXDA using alignment to 1 protein entry:     ZXDA_HUMAN:
    ZXDB    ZXDC    ZNF32    ZNF323

    Find genes that share paralogs with ZXDA           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 ZXDA (see all 139)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2003339311,2
    C--57933092(+) ACACA-/AC/CA 
            
    TTACT
    2 -- ut310--------
    rs286455141,2
    C--57936416(+) AGTGGA/GAACCG 2 P S mis1 ese30--------
    rs568633461,2
    C--57936433(+) GGCAGC/TGGGGG 2 H R mis10--------
    rs22357291,2
    C--57936441(+) GGGCCC/TTGCGC 2 Q syn1 ese31Minor allele frequency- T:0.00NA 2
    rs22357301,2
    C--57936442(+) GGCCCT/AGCGCA 2 /Q /L mis1 ese31Minor allele frequency- A:0.00NA 2
    rs602938291,2
    C--57936462(+) GCGGGA/GTTCGC 2 N syn10--------
    rs1819553161,2
    --57943428(+) GGATGA/GGAATA 1 -- ds50010--------
    rs1869999561,2
    --57943487(+) TTCACG/TTTTAC 1 -- ds50010--------
    rs1134128481,2
    F--57943490(+) ACTTTC/TACTAT 1 -- ds50011Minor allele frequency- T:0.00CSA 1
    rs1833099591,2
    C--57943880(+) GCCCAC/TGGACA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for ZXDA (57931864 - 57937067 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for ZXDA:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv518933CNV Gain19592680

    Locus Specific Mutation Databases (LSDB): ZXDA

    Site Specific Mutation Identification with 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.)
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    OMIM gene information: 300235    OMIM disorders: --

    1 disease from the University of Copenhagen DISEASES database for ZXDA:
    Turner syndrome

    Find genes that share disorders with ZXDA           About GenesLikeMe


    Export disorders for ZXDA 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 ZXDA gene, integrated from 10 sources (see all 11):
    (articles sorted by number of sources associating them with ZXDA)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Duplicated zinc finger protein genes on the proximal short arm of the human X chromosome: isolation, characterization and X-inactivation studies. (PubMed id 8268913)1, 2, 3 Greig G.M.... Willard H.F. (Hum. Mol. Genet. 1993)
    2. The zinc finger proteins ZXDA and ZXDC form a complex that binds CIITA and regulates MHC II gene transcription. (PubMed id 17493635)1, 2, 9 Al-Kandari W.... Fontes J.D. (J. Mol. Biol. 2007)
    3. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)
    4. 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)
    5. Genome-wide association study identifies loci affecting blood copper, selenium and zinc. (PubMed id 23720494)1 Evans D.M....Whitfield J.B. (Hum. Mol. Genet. 2013)
    6. An N- and C-terminal truncated isoform of zinc finger X-linked duplicated C protein represses MHC class II transcription. (PubMed id 19777325)1 Aleksandrova A.... Fontes J.D. (Mol. Cell. Biochem. 2010)
    7. A systematic, large-scale resequencing screen of X-chromosome coding exons in mental retardation. (PubMed id 19377476)1 Tarpey P.S.... Stratton M.R. (Nat. Genet. 2009)
    8. Sumoylation of the zinc finger protein ZXDC enhances the function of its transcriptional activation domain. (PubMed id 17696781)1 Jambunathan S. and Fontes J.D. (Biol. Chem. 2007)
    9. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1 Beausoleil S.A.... Gygi S.P. (Nat. Biotechnol. 2006)
    10. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)

    (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: 7789 HGNC: 13198 AceView: ZXDA Ensembl:ENSG00000198205 euGenes: HUgn7789
    ECgene: ZXDA H-InvDB: ZXDA

    (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 ZXDA 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 ZXDA gene:
    Search GeneIP for patents involving ZXDA

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



    (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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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