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

Gene ID: 158586, updated on 5-Mar-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
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Genomic context

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Location:
Xp11.21
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (57592011..57597477)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (56890820..56896286)
105.20220307 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. SUMOylation of DDX39A Alters Binding and Export of Antiviral Transcripts to Control Innate Immunity. Shi P, et al. J Immunol, 2020 Jul 1. PMID 32393512

See all (9) 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)

Genotypes

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 molecular_function ND
No biological Data available
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 biological_process ND
No biological Data available
more info
  
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_2023_10

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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