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TFAP2A transcription factor AP-2 alpha [ Homo sapiens (human) ]

Gene ID: 7020, updated on 17-Mar-2024

Summary

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Official Symbol
TFAP2Aprovided by HGNC
Official Full Name
transcription factor AP-2 alphaprovided by HGNC
Primary source
HGNC:HGNC:11742
See related
Ensembl:ENSG00000137203 MIM:107580; AllianceGenome:HGNC:11742
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
AP-2; BOFS; AP2TF; TFAP2; AP-2alpha
Summary
The protein encoded by this gene is a transcription factor that binds the consensus sequence 5'-GCCNNNGGC-3'. The encoded protein functions as either a homodimer or as a heterodimer with similar family members. This protein activates the transcription of some genes while inhibiting the transcription of others. Defects in this gene are a cause of branchiooculofacial syndrome (BOFS). Three transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Dec 2009]
Expression
Biased expression in skin (RPKM 17.3), placenta (RPKM 12.3) and 5 other tissues See more
Orthologs
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Genomic context

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Location:
6p24.3
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (10396677..10419659, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (10264407..10287386, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (10396910..10419892, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene RPL7L1 pseudogene 20 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:10390646-10391250 Neighboring gene uncharacterized LOC124901485 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:10399255-10399797 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:10399798-10400339 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:10403277-10404476 Neighboring gene TFAP2A antisense RNA 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16900 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:10414531-10415188 Neighboring gene TFAP2A antisense RNA 1 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr6:10415189-10415848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:10416507-10417164 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr6:10417165-10417822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:10419141-10419798 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16901 Neighboring gene uncharacterized LOC107986564 Neighboring gene long intergenic non-protein coding RNA 518 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:10433906-10435105 Neighboring gene MIR5689 host gene Neighboring gene microRNA 5689

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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 Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Epigenetically modified AP-2α by DNA methyltransferase facilitates glioma immune evasion by upregulating PD-L1 expression. Long S, et al. Cell Death Dis, 2023 Jun 17. PMID 37330579, Free PMC Article
  2. TFAP2A promotes cervical cancer via a positive feedback pathway with PD‑L1. Yang J, et al. Oncol Rep, 2023 Jun. PMID 37083077, Free PMC Article
  3. Transcription factor AP-2α activates RNA polymerase III-directed transcription and tumor cell proliferation by controlling expression of c-MYC and p53. Wang J, et al. J Biol Chem, 2023 Mar. PMID 36707053, Free PMC Article
  4. Family based and case-control designs reveal an association of TFAP2A in nonsyndromic cleft lip only among Vietnamese population. Nguyen DM, et al. Mol Genet Genomic Med, 2021 Sep. PMID 34310873, Free PMC Article
  5. AP-2α Regulates S-Phase and Is a Marker for Sensitivity to PI3K Inhibitor Buparlisib in Colon Cancer. Beck AC, et al. Mol Cancer Res, 2021 Jul. PMID 33753551, Free PMC Article

See all (280) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Tyrosine phosphorylation-mediated YAP1-TFAP2A interactions coordinate transcription and trastuzumab resistance in HER2+ breast cancer.
    Title: Tyrosine phosphorylation-mediated YAP1-TFAP2A interactions coordinate transcription and trastuzumab resistance in HER2+ breast cancer.
  2. Potential prognosis and immunotherapy predictor TFAP2A in pan-cancer.
    Title: Potential prognosis and immunotherapy predictor TFAP2A in pan-cancer.
  3. TFAP2A activates HMGA1 to promote glycolysis and lung adenocarcinoma progression.
    Title: TFAP2A activates HMGA1 to promote glycolysis and lung adenocarcinoma progression.
  4. Structural basis for specific DNA sequence motif recognition by the TFAP2 transcription factors.
    Title: Structural basis for specific DNA sequence motif recognition by the TFAP2 transcription factors.
  5. Epigenetically modified AP-2alpha by DNA methyltransferase facilitates glioma immune evasion by upregulating PD-L1 expression.
    Title: Epigenetically modified AP-2α by DNA methyltransferase facilitates glioma immune evasion by upregulating PD-L1 expression.
  6. TFAP2A promotes cervical cancer via a positive feedback pathway with PD-L1.
    Title: TFAP2A promotes cervical cancer via a positive feedback pathway with PD‑L1.
  7. Transcription factor AP-2alpha activates RNA polymerase III-directed transcription and tumor cell proliferation by controlling expression of c-MYC and p53.
    Title: Transcription factor AP-2α activates RNA polymerase III-directed transcription and tumor cell proliferation by controlling expression of c-MYC and p53.
  8. AP2a-Mediated Upregulation of miR-125a-5p Ameliorates Radiation-Induced Oxidative Stress Injury via BRD4/Nrf2/HO-1 Signaling.
    Title: AP2a-Mediated Upregulation of miR-125a-5p Ameliorates Radiation-Induced Oxidative Stress Injury via BRD4/Nrf2/HO-1 Signaling.
  9. The oncogenic role of TFAP2A in bladder urothelial carcinoma via a novel long noncoding RNA TPRG1-AS1/DNMT3A/CRTAC1 axis.
    Title: The oncogenic role of TFAP2A in bladder urothelial carcinoma via a novel long noncoding RNA TPRG1-AS1/DNMT3A/CRTAC1 axis.
  10. Long noncoding RNA CDKN2B-AS1 silencing protects against esophageal cancer cell invasion and migration by inactivating the TFAP2A/FSCN1 axis.
    Title: Long noncoding RNA CDKN2B-AS1 silencing protects against esophageal cancer cell invasion and migration by inactivating the TFAP2A/FSCN1 axis.
Submit: New GeneRIF Correction See all GeneRIFs (176)

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

Associated conditions

Description Tests
Anophthalmia-microphthalmia syndrome
MedGen: C5680330 GeneReviews: Not available
Compare labs
Branchiooculofacial syndrome
MedGen: C0376524 OMIM: 113620 GeneReviews: Branchiooculofacial Syndrome
Compare labs

EBI GWAS Catalog

Description
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
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

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env c-FLIPL inhibits Bax activation via modulating PKC expression at the transcriptional level involving AP-2 during gp120 treatment PubMed
Nef nef shRNA knockdown of TFAP2A (AP2) strongly impairs the capacity of Nef to downmodulate CD4 in primary CD4+ T cells and SupT1 T cells; Nef-mediated downmodulation of CD4 is enhanced by TFAP2A (AP2) PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ51761

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables nuclear receptor corepressor activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables sequence-specific DNA binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in anatomical structure development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in bone morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cellular response to iron ion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in embryonic cranial skeleton morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in embryonic forelimb morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in eyelid development in camera-type eye ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in inner ear morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in kidney development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of apoptotic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of cell population proliferation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of reactive oxygen species metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by competitive promoter binding IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in oculomotor nerve formation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in optic cup structural organization ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in optic vesicle morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of bone mineralization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of neuron apoptotic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of tooth mineralization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of cell differentiation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of cell population proliferation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in retina layer formation IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in roof of mouth development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in sensory perception of sound IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in trigeminal nerve development ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of chromatin ISA
Inferred from Sequence Alignment
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
transcription factor AP-2-alpha
Names
AP-2 transcription factor
activating enhancer-binding protein 2-alpha
activator protein 2
transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha)

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

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.

Genomic

  1. NG_016151.1 RefSeqGene

    Range
    9491..27888
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001032280.3 → NP_001027451.1  transcription factor AP-2-alpha isoform b

    See identical proteins and their annotated locations for NP_001027451.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct N-terminus compared to isoform a.
    Source sequence(s)
    AL138885, BC017754, X52611
    Consensus CDS
    CCDS34337.1
    UniProtKB/Swiss-Prot
    P05549, Q13777, Q5TAV5, Q8N1C6
    Related
    ENSP00000368928.3, ENST00000379608.9
    Conserved Domains (1) summary
    pfam03299
    Location:205 → 399
    TF_AP-2; Transcription factor AP-2

  2. NM_001042425.3 → NP_001035890.1  transcription factor AP-2-alpha isoform c

    See identical proteins and their annotated locations for NP_001035890.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (c) has a shorter and distinct N-terminus compared to isoform a.
    Source sequence(s)
    AL138885, CB990517, X52611
    Consensus CDS
    CCDS43422.1
    UniProtKB/Swiss-Prot
    P05549, Q13777, Q5TAV5, Q8N1C6
    Related
    ENSP00000316516.4, ENST00000319516.8
    Conserved Domains (1) summary
    pfam03299
    Location:207 → 401
    TF_AP-2; Transcription factor AP-2

  3. NM_001372066.1 → NP_001358995.1  transcription factor AP-2-alpha isoform a

    Status: REVIEWED

    Source sequence(s)
    AL138885, BM714893, X52611
    Consensus CDS
    CCDS4510.2
    UniProtKB/Swiss-Prot
    P05549, Q13777, Q5TAV5, Q8N1C6
    UniProtKB/TrEMBL
    A0A6E1XE14
    Related
    ENSP00000368933.5, ENST00000379613.10
    Conserved Domains (1) summary
    pfam03299
    Location:213 → 407
    TF_AP-2; Transcription factor AP-2

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    10396677..10419659 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    10264407..10287386 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_003220.3: Suppressed sequence

    Description
    NM_003220.3: This RefSeq was removed because currently there is support for the transcript but not for the protein
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P05549.1 GenPept UniProtKB/Swiss-Prot:P05549

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Medical
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