Human Gene ZXDA (uc004dve.3) Description and Page Index
  Description: Homo sapiens zinc finger, X-linked, duplicated A (ZXDA), mRNA.
RefSeq Summary (NM_007156): 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]. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on alignments. ##RefSeq-Attributes-START## RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chrX:57,931,864-57,937,067 Size: 5,204 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chrX:57,934,455-57,936,854 Size: 2,400 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chrX:57,931,864-57,937,067)mRNA (may differ from genome)Protein (799 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Zinc finger X-linked protein ZXDA;
FUNCTION: Cooperates with CIITA to promote transcription of MHC class I and MHC class II genes.
SUBUNIT: Self-associates. Interacts with ZXDC and CIITA.
INTERACTION: P33076:CIITA; NbExp=4; IntAct=EBI-1538980, EBI-1538819; Q2QGD7:ZXDC; NbExp=5; IntAct=EBI-1538980, EBI-1538838;
TISSUE SPECIFICITY: May be expressed in brain, heart, kidney, liver, lung, muscle and placenta.
SIMILARITY: Belongs to the ZXD family.
SIMILARITY: Contains 10 C2H2-type zinc fingers.
SEQUENCE CAUTION: Sequence=AAC37521.1; Type=Frameshift; Positions=753;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1.70 RPKM in Uterus
Total median expression: 51.82 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -66.30213-0.311 Picture PostScript Text
3' UTR -629.162591-0.243 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF13894 - C2H2-type zinc finger
PF13912 - C2H2-type zinc finger

SCOP Domains:
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on P98168
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003676 nucleic acid binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0046872 metal ion binding
GO:0070742 C2H2 zinc finger domain binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0045893 positive regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  AK292686 - Homo sapiens cDNA FLJ76957 complete cds, highly similar to Homo sapiens zinc finger, X-linked, duplicated A (ZXDA), mRNA.
BC059356 - Homo sapiens zinc finger, X-linked, duplicated A, mRNA (cDNA clone MGC:71491 IMAGE:30347480), complete cds.
AK122815 - Homo sapiens cDNA FLJ16412 fis, clone BRACE2029356, highly similar to ZINC FINGER X-LINKED PROTEIN ZXDA.
JD026601 - Sequence 7625 from Patent EP1572962.
L14787 - Human DNA-binding protein mRNA, 3'end.
JD088156 - Sequence 69180 from Patent EP1572962.
JD510862 - Sequence 491886 from Patent EP1572962.
EU446736 - Synthetic construct Homo sapiens clone IMAGE:100069907; IMAGE:100011945; FLH257110.01L zinc finger, X-linked, duplicated A (ZXDA) gene, encodes complete protein.
JD391115 - Sequence 372139 from Patent EP1572962.
DL492194 - Novel nucleic acids.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_007156, NP_009087, P98168, Q9UJP7, ZXDA_HUMAN
UCSC ID: uc004dve.3
RefSeq Accession: NM_007156
Protein: P98168 (aka ZXDA_HUMAN)
CCDS: CCDS14376.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_007156.4
exon count: 1CDS single in 3' UTR: no RNA size: 5204
ORF size: 2400CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4991.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.