ZXDB Gene (Protein Coding)

Zinc Finger X-Linked Duplicated B

GC0XP057591
GIFtS:
31
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] See more...

Aliases for ZXDB Gene

Aliases for ZXDB Gene

  • Zinc Finger X-Linked Duplicated B 2 3 5
  • Zinc Finger X-Linked Protein ZXDB 3 4
  • DJ83L6.1 3
  • ZNF905 3

External Ids for ZXDB Gene

Previous GeneCards Identifiers for ZXDB Gene

  • GC0XU990242
  • GC0XP055586
  • GC0XP056223
  • GC0XM056901
  • GC0XP056585
  • GC0XP057484
  • GC0XP057634
  • GC0XP054679

Summaries for ZXDB Gene

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. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is ZXDA.

UniProtKB/Swiss-Prot Summary for ZXDB Gene

  • Cooperates with CIITA to promote transcription of MHC class I and MHC class II genes.

Additional gene information for ZXDB Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZXDB Gene

Genomics for ZXDB Gene

GeneHancer (GH) Regulatory Elements for ZXDB Gene

Promoters and enhancers for ZXDB Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH0XJ057590 Promoter/Enhancer 1.5 Ensembl ENCODE CraniofacialAtlas 0.6 +2.3 2316 6.5 ZNF24 CTCF POLR2A HLF L3MBTL2 ZFX MAFK CEBPG MLLT1 ZNF687 MTHFD1P1 ZXDB lnc-NLRP2B-1
GH0XJ058103 Enhancer 0.2 dbSUPER 4.1 +514.3 514312 5.2 SPIN2B FAAH2 ZXDB piR-61240-317 piR-61240-316
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZXDB on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZXDB gene promoter:
  • AML1a
  • AREB6
  • ARP-1
  • E47
  • Lmo2
  • Nkx2-2
  • Pax-5
  • PPAR-gamma1
  • PPAR-gamma2

Genomic Locations for ZXDB Gene

Genomic Locations for ZXDB Gene
chrX:57,591,652-57,597,545
(GRCh38/hg38)
Size:
5,894 bases
Orientation:
Plus strand
chrX:57,618,269-57,623,910
(GRCh37/hg19)
Size:
5,642 bases
Orientation:
Plus strand

Genomic View for ZXDB Gene

Genes around ZXDB on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZXDB Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZXDB Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for ZXDB Gene

Proteins for ZXDB Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for ZXDB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P98169-ZXDB_HUMAN
    Recommended name:
    Zinc finger X-linked protein ZXDB
    Protein Accession:
    P98169
    Secondary Accessions:
    • A8K151
    • Q9UBB3

    Protein attributes for ZXDB Gene

    Size:
    803 amino acids
    Molecular mass:
    84792 Da
    Quaternary structure:
    • Self-associates. Interacts with ZXDC and CIITA (By similarity).

neXtProt entry for ZXDB Gene

Protein Expression for ZXDB Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for ZXDB Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZXDB Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ZXDB Gene

Domains & Families for ZXDB Gene

Gene Families for ZXDB Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for ZXDB Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for ZXDB Gene

GenScript: Design optimal peptide antigens:
  • Zinc finger X-linked protein ZXDB (ZXDB_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P98169

UniProtKB/Swiss-Prot:

ZXDB_HUMAN :
  • Belongs to the ZXD family.
Family:
  • Belongs to the ZXD family.
genes like me logo Genes that share domains with ZXDB: view

Function for ZXDB Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for ZXDB Gene

UniProtKB/Swiss-Prot Function:
Cooperates with CIITA to promote transcription of MHC class I and MHC class II genes.
GENATLAS Biochemistry:
zinc finger protein (C2H2 type),X linked,duplicated B

Phenotypes From GWAS Catalog for ZXDB Gene

Gene Ontology (GO) - Molecular Function for ZXDB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific ISA --
GO:0003674 molecular_function ND --
GO:0003676 nucleic acid binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZXDB: view
genes like me logo Genes that share phenotypes with ZXDB: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZXDB

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZXDB Gene

Localization for ZXDB Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZXDB Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ZXDB gene
Compartment Confidence
nucleus 4

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZXDB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with ZXDB: view

Pathways & Interactions for ZXDB Gene

PathCards logo

SuperPathways for ZXDB Gene

No Data Available

Interacting Proteins for ZXDB Gene

STRING Interaction Network Preview (showing top 5 STRING interactants - click image to see top 25)
STRING Interaction Network
Selected Interacting proteins: ENSP00000364023 P98169-ZXDB_HUMAN for ZXDB Gene via STRING IID

GPS-Prot Interaction Network for ZXDB

Gene Ontology (GO) - Biological Process for ZXDB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006357 regulation of transcription by RNA polymerase II IEA --
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with ZXDB: view

No data available for Pathways by source and SIGNOR curated interactions for ZXDB Gene

Drugs & Compounds for ZXDB Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for ZXDB Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for ZXDB Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(48) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZXDB

Alternative Splicing Database (ASD) splice patterns (SP) for ZXDB Gene

No ASD Table

Relevant External Links for ZXDB Gene

GeneLoc Exon Structure for
ZXDB
ECgene alternative splicing isoforms for
ZXDB

Expression for ZXDB Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZXDB Gene

mRNA expression in normal human tissues for ZXDB Gene
mRNA expression by BioGPS for ZXDB GenemRNA expression by GTEx for ZXDB Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ZXDB Gene



NURSA nuclear receptor signaling pathways regulating expression of ZXDB Gene:

ZXDB

SOURCE GeneReport for Unigene cluster for ZXDB Gene:

Hs.156257

mRNA Expression by UniProt/SwissProt for ZXDB Gene:

P98169-ZXDB_HUMAN
Tissue specificity: May be expressed in brain, heart, kidney, liver, lung, muscle and placenta.

Evidence on tissue expression from TISSUES for ZXDB Gene

  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with ZXDB: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZXDB Gene

Orthologs for ZXDB Gene

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

Orthologs for ZXDB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia ZXDB 33 32
  • 98.91 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia ZXDB 32
  • 89.1 (n)
-- 33
  • 78 (a)
 OneToMany
cow
(Bos Taurus)
 Mammalia LOC510362 32
  • 88.06 (n)
-- 33
  • 85 (a)
 ManyToMany
-- 33
  • 84 (a)
 ManyToMany
mouse
(Mus musculus)
 Mammalia Zxdb 17 33 32
  • 82.29 (n)
rat
(Rattus norvegicus)
 Mammalia Zxdb 32
  • 82.2 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 33
  • 61 (a)
 OneToMany
oppossum
(Monodelphis domestica)
 Mammalia -- 33
  • 50 (a)
 OneToMany
chicken
(Gallus gallus)
 Aves -- 33
  • 50 (a)
 OneToMany
lizard
(Anolis carolinensis)
 Reptilia -- 33
  • 45 (a)
 OneToMany
zebrafish
(Danio rerio)
 Actinopterygii ZXDC 33
  • 26 (a)
 OneToMany
fruit fly
(Drosophila melanogaster)
 Insecta CG9609 33
  • 22 (a)
 OneToMany
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes SWI5 33
  • 7 (a)
 ManyToMany
ACE2 33
  • 7 (a)
 ManyToMany
Species where no ortholog for ZXDB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ZXDB Gene

ENSEMBL:
Gene Tree for ZXDB (if available)
TreeFam:
Gene Tree for ZXDB (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZXDB: view image

Paralogs for ZXDB Gene

Paralogs for ZXDB Gene

(4) SIMAP similar genes for ZXDB Gene using alignment to 1 proteins:

  • ZXDB_HUMAN
genes like me logo Genes that share paralogs with ZXDB: view

Variants for ZXDB Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for ZXDB Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1000283649 -- 57,596,856(+) GAG/GAGGAG 3_prime_UTR_variant
rs1000336991 -- 57,596,535(+) C/G 3_prime_UTR_variant
rs1001885710 -- 57,594,817(+) G/ 3_prime_UTR_variant
rs1001962032 -- 57,596,927(+) G/C 3_prime_UTR_variant
rs1002399855 -- 57,594,824(+) C/G/T 3_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for ZXDB Gene

Variant ID Type Subtype PubMed ID
dgv514n21 CNV gain 19592680
nsv6919 CNV insertion 18451855

Variation tolerance for ZXDB Gene

Residual Variation Intolerance Score: 29.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.13; 38.72% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZXDB Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZXDB

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZXDB Gene

Disorders for ZXDB Gene

Additional Disease Information for ZXDB

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for ZXDB Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZXDB Gene

Publications for ZXDB Gene

  1. Duplicated zinc finger protein genes on the proximal short arm of the human X chromosome: isolation, characterization and X-inactivation studies. (PMID: 8268913) Greig GM … Willard HF (Human molecular genetics 1993) 2 3 4 56
  2. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross MT … Bentley DR (Nature 2005) 3 4 56
  3. Genome-wide association study identifies loci affecting blood copper, selenium and zinc. (PMID: 23720494) Evans DM … Whitfield JB (Human molecular genetics 2013) 3 56
  4. Ubiquitin-mediated proteolysis of HuR by heat shock. (PMID: 19322201) Abdelmohsen K … Gorospe M (The EMBO journal 2009) 3 56
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 4 56

ExternalLinks

View latest publications for ZXDB gene in Mastermind

Products for ZXDB Gene

Sources for ZXDB Gene