Format

Send to:

Choose Destination

GATAD2A GATA zinc finger domain containing 2A [ Homo sapiens (human) ]

Gene ID: 54815, updated on 12-Aug-2018

Summary

Official Symbol
GATAD2Aprovided by HGNC
Official Full Name
GATA zinc finger domain containing 2Aprovided by HGNC
Primary source
HGNC:HGNC:29989
See related
Ensembl:ENSG00000167491 MIM:614997; Vega:OTTHUMG00000152541
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
p66alpha
Expression
Ubiquitous expression in testis (RPKM 18.1), spleen (RPKM 10.8) and 25 other tissues See more
Orthologs

Genomic context

See GATAD2A in Genome Data Viewer
Location:
19p13.11
Exon count:
18
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 19 NC_000019.10 (19385803..19508932)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (19496642..19619741)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene SURP and G-patch domain containing 1 Neighboring gene MAU2 sister chromatid cohesion factor Neighboring gene microRNA 640 Neighboring gene NADH:ubiquinone oxidoreductase subunit A13 Neighboring gene testis specific serine kinase 6

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Biological insights from 108 schizophrenia-associated genetic loci.
NHGRI GWA Catalog
Genome-wide association analysis identifies 13 new risk loci for schizophrenia.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of GATA zinc finger domain containing 2A (GATAD2A) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Protein interactions

Protein Gene Interaction Pubs
Tat tat Methyl-CpG-binding proteins MBD2 and p66alpha are identified to interact with HIV-1 Tat in Jurkat cell PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Chromatin modifying enzymes, organism-specific biosystem (from REACTOME)
    Chromatin modifying enzymes, organism-specific biosystemEukaryotic DNA is associated with histone proteins and organized into a complex nucleoprotein structure called chromatin. This structure decreases the accessibility of DNA but also helps to protect i...
  • Chromatin organization, organism-specific biosystem (from REACTOME)
    Chromatin organization, organism-specific biosystemChromatin organization refers to the composition and conformation of complexes between DNA, protein and RNA. It is determined by processes that result in the specification, formation or maintenance o...
  • ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression, organism-specific biosystem (from REACTOME)
    ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression, organism-specific biosystemAbout half of the rRNA genes in the genome are actively expressed, being transcribed by RNA polymerase I (reviewed in Nemeth and Langst 2008, Bartova et al. 2010, Goodfellow and Zomerdijk 2012, Grumm...
  • Epigenetic regulation of gene expression, organism-specific biosystem (from REACTOME)
    Epigenetic regulation of gene expression, organism-specific biosystemEpigenetic processes regulate gene expression by modulating the frequency, rate, or extent of gene expression in a mitotically or meiotically heritable way that does not entail a change in the DNA se...
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
    Generic Transcription Pathway, organism-specific biosystemOVERVIEW OF TRANSCRIPTION REGULATION: Detailed studies of gene transcription regulation in a wide variety of eukaryotic systems has revealed the general principles and mechanisms by which cell- or t...
  • HDACs deacetylate histones, organism-specific biosystem (from REACTOME)
    HDACs deacetylate histones, organism-specific biosystemLysine deacetylases (KDACs), historically referred to as histone deacetylases (HDACs), are divided into the Rpd3/Hda1 metal-dependent 'classical HDAC family' (de Ruijter et al. 2003, Verdin et al. 2...
  • Positive epigenetic regulation of rRNA expression, organism-specific biosystem (from REACTOME)
    Positive epigenetic regulation of rRNA expression, organism-specific biosystemTranscription of rRNA genes is controlled by epigenetic activation and repression (reviewed in Percipalle and Farrants 2006, McStay and Grummt 2008, Goodfellow and Zomerdijk 2012, Grummt and Langst 2...
  • RNA Polymerase I Promoter Clearance, organism-specific biosystem (from REACTOME)
    RNA Polymerase I Promoter Clearance, organism-specific biosystemPromoter clearance is one of the rate-limiting steps in Polymerase I transcription. This step is composed of three phases, promoter opening, transcription initiation and promoter escape.
  • RNA Polymerase I Transcription, organism-specific biosystem (from REACTOME)
    RNA Polymerase I Transcription, organism-specific biosystemThe rRNA genes are transcribed by RNA polymerase I, one of three eukaryotic nuclear RNA polymerases. The polymerase is a multisubunit complex, composed of two large subunits (the most conserved porti...
  • RNA Polymerase I Transcription Initiation, organism-specific biosystem (from REACTOME)
    RNA Polymerase I Transcription Initiation, organism-specific biosystemDuring initiation the double-stranded DNA must be melted and transcription begins. SL1 forms and interacts with UBF-1 and the rDNA promoter. It is this platform that will recruit active RNA polymeras...
  • RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription, organism-specific biosystem (from REACTOME)
    RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription, organism-specific biosystemTranscription by RNA Polymerase I, RNA Polymerase III and transcription from mitochondrial promoters.
  • Regulation of TP53 Activity, organism-specific biosystem (from REACTOME)
    Regulation of TP53 Activity, organism-specific biosystemProtein stability and transcriptional activity of TP53 (p53) tumor suppressor are regulated by post-translational modifications that include ubiquitination, phosphorylation, acetylation, methylation,...
  • Regulation of TP53 Activity through Acetylation, organism-specific biosystem (from REACTOME)
    Regulation of TP53 Activity through Acetylation, organism-specific biosystemTranscriptional activity of TP53 is positively regulated by acetylation of several of its lysine residues. BRD7 binds TP53 and promotes acetylation of TP53 lysine residue K382 by acetyltransferase EP...
  • Signaling events mediated by HDAC Class I, organism-specific biosystem (from Pathway Interaction Database)
    Signaling events mediated by HDAC Class I, organism-specific biosystem
    Signaling events mediated by HDAC Class I
  • Transcriptional Regulation by TP53, organism-specific biosystem (from REACTOME)
    Transcriptional Regulation by TP53, organism-specific biosystemThe tumor suppressor TP53 (encoded by the gene p53) is a transcription factor. Under stress conditions, it recognizes specific responsive DNA elements and thus regulates the transcription of many gen...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20085, FLJ21017

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding, bridging IDA
Inferred from Direct Assay
more info
PubMed 
sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
DNA methylation TAS
Traceable Author Statement
more info
PubMed 
negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
NuRD complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NuRD complex IDA
Inferred from Direct Assay
more info
PubMed 
nuclear speck IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
transcriptional repressor p66-alpha
Names
GATA zinc finger domain-containing protein 2A

NCBI Reference Sequences (RefSeq)

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_001300946.2NP_001287875.1  transcriptional repressor p66-alpha isoform 1

    See identical proteins and their annotated locations for NP_001287875.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC003030, AC011448, KC877710
    Consensus CDS
    CCDS77270.1
    UniProtKB/Swiss-Prot
    Q86YP4
    UniProtKB/TrEMBL
    A0A024R7M6
    Related
    ENSP00000384899.2, OTTHUMP00000201912, ENST00000404158.5
    Conserved Domains (2) summary
    pfam00320
    Location:418452
    GATA; GATA zinc finger
    pfam16563
    Location:137173
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
  2. NM_001359631.1NP_001346560.1  transcriptional repressor p66-alpha isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC003030, AC011448
    Conserved Domains (3) summary
    pfam00320
    Location:418452
    GATA; GATA zinc finger
    pfam11221
    Location:98167
    Med21; Subunit 21 of Mediator complex
    pfam16563
    Location:137173
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
  3. NM_017660.4NP_060130.3  transcriptional repressor p66-alpha isoform 2

    See identical proteins and their annotated locations for NP_060130.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 2, which is shorter by an amino acid, compared to isoform 1.
    Source sequence(s)
    AC011448, AY186731, BC012902, BG773264, BU632713, DB123918, HY012814
    Consensus CDS
    CCDS12402.2
    UniProtKB/Swiss-Prot
    Q86YP4
    UniProtKB/TrEMBL
    A0A024R7K7
    Related
    ENSP00000353463.3, ENST00000360315.7
    Conserved Domains (2) summary
    pfam00320
    Location:417451
    GATA; GATA zinc finger
    pfam16563
    Location:137173
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p12 Primary Assembly

    Range
    19385803..19508932
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017026903.1XP_016882392.1  transcriptional repressor p66-alpha isoform X3

  2. XM_017026907.1XP_016882396.1  transcriptional repressor p66-alpha isoform X2

  3. XM_011528105.2XP_011526407.1  transcriptional repressor p66-alpha isoform X4

    See identical proteins and their annotated locations for XP_011526407.1

    UniProtKB/Swiss-Prot
    Q86YP4
    UniProtKB/TrEMBL
    A0A024R7M6
    Conserved Domains (2) summary
    pfam00320
    Location:418452
    GATA; GATA zinc finger
    pfam16563
    Location:137173
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
  4. XM_017026905.2XP_016882394.1  transcriptional repressor p66-alpha isoform X3

  5. XM_024451560.1XP_024307328.1  transcriptional repressor p66-alpha isoform X6

    Conserved Domains (2) summary
    pfam00320
    Location:326360
    GATA; GATA zinc finger
    pfam16563
    Location:130
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
  6. XM_024451558.1XP_024307326.1  transcriptional repressor p66-alpha isoform X5

    Conserved Domains (3) summary
    pfam00320
    Location:378412
    GATA; GATA zinc finger
    pfam11221
    Location:776
    Med21; Subunit 21 of Mediator complex
    pfam16563
    Location:4682
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
  7. XM_024451559.1XP_024307327.1  transcriptional repressor p66-alpha isoform X5

    Conserved Domains (3) summary
    pfam00320
    Location:378412
    GATA; GATA zinc finger
    pfam11221
    Location:776
    Med21; Subunit 21 of Mediator complex
    pfam16563
    Location:4682
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
  8. XM_017026910.1XP_016882399.1  transcriptional repressor p66-alpha isoform X3

  9. XM_017026904.1XP_016882393.1  transcriptional repressor p66-alpha isoform X3

  10. XM_017026902.1XP_016882391.1  transcriptional repressor p66-alpha isoform X2

  11. XM_017026901.1XP_016882390.1  transcriptional repressor p66-alpha isoform X1

Support Center