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

ZXDB Gene

protein-coding   GIFtS: 43
GCID: GC0XP057634

Zinc Finger, X-Linked, Duplicated B

  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)
About This Section

Aliases
Zinc Finger, X-Linked, Duplicated B1 2
ZNF9052
dJ83L6.12
Zinc Finger X-Linked Protein ZXDB2

External Ids:    HGNC: 131991   Entrez Gene: 1585862   Ensembl: ENSG000001984557   OMIM: 3002365   UniProtKB: P981693   

Export aliases for ZXDB gene to outside databases

Previous GC identifers: GC0XU990242 GC0XP055586 GC0XP056223 GC0XM056901 GC0XP056585 GC0XP057484 GC0XP054679


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

Entrez Gene summary for ZXDB Gene:
The ZXDB gene is one of a pair of duplicated zinc finger genes on chromosome Xp11.21 (Greig et al., 1993 (PubMed
8268913)); see also ZXDA (MIM 300235).(supplied by OMIM, Jul 2010)

GeneCards Summary for ZXDB Gene: 
ZXDB (zinc finger, X-linked, duplicated B) is a protein-coding gene. Diseases associated with ZXDB include turner syndrome. GO annotations related to this gene include molecular_function and nucleic acid binding. An important paralog of this gene is ZXDA.

UniProtKB/Swiss-Prot: ZXDB_HUMAN, P98169
Function: Cooperates with CIITA to promote transcription of MHC class I and MHC class II 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000023.10  NC_018934.2  NT_011630.14  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZXDB gene promoter:
         AREB6   PPAR-gamma1   Pax-5   AML1a   Nkx2-2   Lmo2   ARP-1   PPAR-gamma2   E47   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZXDB promoter sequence
   Search SABiosciences Chromatin IP Primers for ZXDB

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


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

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

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

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP057634:  view genomic region     (about GC identifiers)

Start:
57,618,269 bp from pter      End:
57,623,910 bp from pter
Size:
5,642 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: ZXDB_HUMAN, P98169 (See protein sequence)
Recommended Name: Zinc finger X-linked protein ZXDB  
Size: 803 amino acids; 84792 Da
Subunit: Self-associates. Interacts with ZXDC and CIITA (By similarity)
Subcellular location: Nucleus (Probable)
Secondary accessions: A8K151 Q9UBB3

Explore the universe of human proteins at neXtProt for ZXDB: NX_P98169

Explore proteomics data for ZXDB at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P98169

  • ZXDB Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ZXDB Protein Expression
    REFSEQ proteins: NP_009088.1  
    ENSEMBL proteins: 
     ENSP00000364023  

    Human Recombinant Protein Products for ZXDB: 
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    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

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

    ZXDB for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    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 P98169

    ProtoNet protein and cluster: P98169

    UniProtKB/Swiss-Prot: ZXDB_HUMAN, P98169
    Similarity: Belongs to the ZXD family
    Similarity: Contains 10 C2H2-type zinc fingers


    ZXDB 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,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: ZXDB_HUMAN, P98169
    Function: Cooperates with CIITA to promote transcription of MHC class I and MHC class II genes (By similarity)

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

         Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003674molecular_function ND--
    GO:0003676nucleic acid binding IEA--
    GO:0008270zinc ion binding ----
    GO:0046872metal ion binding IEA--
         
    ZXDB for ontologies           About GeneDecksing


    Animal Models:
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    SwitchGear 3'UTR luciferase reporter plasmidZXDB 3' UTR sequence
    Inhib. RNA
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    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

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

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

    1 Interacting protein for ZXDB (ENSP000003640234) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent IEA--
    GO:0008150biological_process ND--

    ZXDB for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 ZXDB

    Search CenterWatch for drugs/clinical trials and news about ZXDB

    (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,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for ZXDB gene: 
    NM_007157.3  

    Unigene Cluster for ZXDB:

    Zinc finger, X-linked, duplicated B
    Hs.156257  [show with all ESTs]
    Unigene Representative Sequence: NM_007157
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000374888(uc004dvd.3)
    miRNA
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    8/18 QIAGEN miScript miRNA Assays for microRNAs that regulate ZXDB (see all 18):
    hsa-miR-124* hsa-miR-1178 hsa-miR-3673 hsa-miR-361-5p hsa-miR-578 hsa-miR-138-2* hsa-miR-223 hsa-miR-3658
    SwitchGear 3'UTR luciferase reporter plasmidZXDB 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZXDB

    Additional mRNA sequence: 

    AK124513.1 AK289766.1 L14788.1 

    3 DOTS entries:

    DT.95120992  DT.109565  DT.101981193 

    24/48 AceView cDNA sequences (see all 48):

    BM701206 AI360269 L14788 Z41985 BM674105 BE044323 AW150690 AI868484 
    AI335812 BU076306 CA433211 AA400709 BG563527 BE677308 NM_007157 AA400675 
    AK124513 BM069864 BU076572 AW952243 BG403766 BG027131 BM715753 BU173052 

    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™, 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

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


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

    SOURCE GeneReport for Unigene cluster: Hs.156257

    UniProtKB/Swiss-Prot: ZXDB_HUMAN, P98169
    Tissue specificity: May be expressed in brain, heart, kidney, liver, lung, muscle and placenta

        SABiosciences Custom PCR Arrays for ZXDB
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZXDB

    (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 animals.

    Orthologs for ZXDB gene from 5/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zxdb1 , 5 zinc finger, X-linked, duplicated B1, 5 83(n)1
    83.25(a)1
      X (41.68 cM)5
    6681661  NM_001081473.11  NP_001074942.11 
     947245695 
    chicken
    (Gallus gallus)
    Aves --
    --
    52(a)
    1 → many
    12(10656611-10666374)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    43(a)
    24(a)
    1 ↔ many
    possible ortholog
    2(169122892-169230882)
    AAWZ02039790(3413-7801)
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1629726
    ZXDA6
    (see all 6)
    zinc finger, X-linked, duplicated A
    (see all 6)
    27(a)
    27(a)
    (see all 6)
    possible ortholog
    1 ↔ many
    (see all 6)
    19(7518720-7523887)
    6(23710138-23727533)
    fruit fly
    (Drosophila melanogaster)
    Insecta CG96096
    --
    22(a)
    1 → many
    X(16679398-16681011)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZXDB gene
    ZXDA2  GTF3A2  ZXDC2  
    4 SIMAP similar genes for ZXDB using alignment to 1 protein entry:     ZXDB_HUMAN:
    ZXDA    ZXDC    ZNF32    ZNF323

    ZXDB 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) 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

    10/113 SNPs in ZXDB are shown (see all 113)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1416847441,2
    Cuntested157616848(+) GGATGA/C/TGTACA 1 -- us2k10--------
    rs1922009711,2
    --57616301(+) AAACAC/TGAAAA 1 -- us2k10--------
    rs1844914601,2
    --57616344(+) CCCACA/CAGTAG 1 -- us2k10--------
    rs30152761,2
    C,F,A,H--57616441(-) ttgggC/Gaagct 1 -- us2k15Minor allele frequency- G:0.11NS EA WA 420
    rs1379821271,2
    C--57616465(+) CAATTG/TGGCAT 1 -- us2k10--------
    rs29822521,2
    C,F,A,H--57617016(-) CACCTG/ATGTAA 1 -- us2k113Minor allele frequency- A:0.20NS EA NA WA CSA 1367
    rs1873322361,2
    --57617039(+) AAATAA/GTCTAA 1 -- us2k10--------
    rs1928647281,2
    --57617212(+) CATTAA/CAAGAG 1 -- us2k10--------
    rs1844772861,2
    --57617567(+) GTGCTC/GGAGAA 1 -- us2k10--------
    rs1895177641,2
    C--57618070(+) AACATA/GTCTAA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for ZXDB (57618269 - 57623910 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for ZXDB:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv6919CNV Insertion18451855
    dgv514n21CNV Gain19592680

    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, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 300236    OMIM disorders: --

    2 diseases for ZXDB:    About MalaCards
    turner syndrome    

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

    ZXDB for disorders           About GeneDecksing


    Export disorders for ZXDB 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 ZXDB gene integrated from 9 sources:
    (articles sorted by number of sources associating them with ZXDB)
        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. (1993)
    2. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    3. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)

    (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)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 158586 HGNC: 13199 AceView: ZXDB Ensembl:ENSG00000198455 euGenes: HUgn158586
    ECgene: ZXDB H-InvDB: ZXDB

    (According to HUGE)
    About This Section
      --

    (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 ZXDB Pharmacogenomics, SNPs, Pathways

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

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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