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    ZXDB zinc finger X-linked duplicated B [ Homo sapiens (human) ]

    Gene ID: 158586, updated on 14-Nov-2024

    Summary

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    Official Symbol
    ZXDBprovided by HGNC
    Official Full Name
    zinc finger X-linked duplicated Bprovided by HGNC
    Primary source
    HGNC:HGNC:13199
    See related
    Ensembl:ENSG00000198455 MIM:300236; AllianceGenome:HGNC:13199
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ZNF905; dJ83L6.1
    Summary
    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]
    Orthologs
    all
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    Genomic context

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    See ZXDB in Genome Data Viewer
    Location:
    Xp11.21
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (57592011..57597477)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (56890820..56896286)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (57618444..57623910)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene fatty acid amide hydrolase 2 Neighboring gene protein phosphatase 1 regulatory inhibitor subunit 11 pseudogene 2 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:57361506-57362334 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:57362335-57363162 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chrX:57364391-57365161 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:57392555-57393056 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:57393057-57393556 Neighboring gene methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 14361 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29702 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20871 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20872 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:57634195-57634694 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chrX:57673257-57673977 Neighboring gene NANOG hESC enhancer GRCh37_chrX:57677545-57678046 Neighboring gene uncharacterized LOC107985708 Neighboring gene NLR family pyrin domain containing 2B

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Duplicated zinc finger protein genes on the proximal short arm of the human X chromosome: isolation, characterization and X-inactivation studies. Greig GM, et al. Hum Mol Genet, 1993 Oct. PMID 8268913
    2. FBXO38 Ubiquitin Ligase Controls Centromere Integrity via ZXDA/B Stability. Dibus N, et al. Front Cell Dev Biol, 2022. PMID 35813202, Free PMC Article
    3. Genome-wide association study identifies loci affecting blood copper, selenium and zinc. Evans DM, et al. Hum Mol Genet, 2013 Oct 1. PMID 23720494, Free PMC Article
    4. The DNA sequence of the human X chromosome. Ross MT, et al. Nature, 2005 Mar 17. PMID 15772651, Free PMC Article
    5. Identifications of novel host cell factors that interact with the receptor-binding domain of the SARS-CoV-2 spike protein. Tang X, et al. J Biol Chem, 2024 Jun. PMID 38777146, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide association study identifies loci affecting blood copper, selenium and zinc.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger X-linked protein ZXDB

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_007157.4 → NP_009088.1  zinc finger X-linked protein ZXDB

      See identical proteins and their annotated locations for NP_009088.1

      Status: REVIEWED

      Source sequence(s)
      AL031115
      Consensus CDS
      CCDS35313.1
      UniProtKB/Swiss-Prot
      A8K151, P98169, Q9UBB3
      UniProtKB/TrEMBL
      A8K9H1
      Related
      ENSP00000364023.1, ENST00000374888.3
      Conserved Domains (6) summary
      COG5048
      Location:441 → 572
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:429 → 448
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:516 → 538
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:304 → 328
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:350 → 373
      zf-H2C2_2; Zinc-finger double domain
      pfam17017
      Location:304 → 449
      zf-C2H2_aberr; Aberrant zinc-finger

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      57592011..57597477
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      56890820..56896286
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P98169.2 GenPept UniProtKB/Swiss-Prot:P98169

    Gene LinkOut

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