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Aliases for GTF2A1 Gene

Aliases for GTF2A1 Gene

  • General Transcription Factor IIA Subunit 1 2 3 4 5
  • Transcription Initiation Factor TFIIA 42 KDa Subunit 3 4
  • General Transcription Factor IIA, 1, 19/37kDa 2 3
  • Glucose Regulated Protein, 58kD Pseudogene 2 3
  • General Transcription Factor IIA 1 2 3
  • TFIIA Alpha/Beta Subunits 2 3
  • TFIIA-42 3 4
  • TFIIAL 3 4
  • TF2A1 3 4
  • Transcription Initiation Factor IIA Subunit 1 3
  • TFIIA Alpha, P55 3
  • TFIIA 3

External Ids for GTF2A1 Gene

Previous GeneCards Identifiers for GTF2A1 Gene

  • GC14M079152
  • GC14M075463
  • GC14M079634
  • GC14M079636
  • GC14M080716
  • GC14M081646
  • GC14M061813

Summaries for GTF2A1 Gene

Entrez Gene Summary for GTF2A1 Gene

  • Accurate transcription initiation on TATA-containing class II genes involves the ordered assembly of RNA polymerase II (POLR2A; MIM 180660) and several general initiation factors (summarized by DeJong and Roeder, 1993 [PubMed 8224848]). One of these factors is TFIIA, which when purified from HeLa extracts consists of 35-, 19-, and 12-kD subunits.[supplied by OMIM, Jul 2010]

GeneCards Summary for GTF2A1 Gene

GTF2A1 (General Transcription Factor IIA Subunit 1) is a Protein Coding gene. Among its related pathways are RNA Polymerase II Transcription Initiation And Promoter Clearance and Viral carcinogenesis. Gene Ontology (GO) annotations related to this gene include protein heterodimerization activity and transcription coactivator activity.

UniProtKB/Swiss-Prot for GTF2A1 Gene

  • TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Gene Wiki entry for GTF2A1 Gene

Additional gene information for GTF2A1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GTF2A1 Gene

Genomics for GTF2A1 Gene

GeneHancer (GH) Regulatory Elements for GTF2A1 Gene

Promoters and enhancers for GTF2A1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH14J081218 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 679.2 +0.7 726 4.8 CLOCK ZFP64 DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC ZNF610 GTF2A1 GC14P081222 LOC101928504 PIR43292 CEP128 GC14M081203 SNORA79
GH14J081398 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 12.8 -179.4 -179408 4.5 PKNOX1 ATF1 ARNT ZNF133 NEUROD1 FEZF1 NCOA2 TCF12 GATA2 FOS GTF2A1 STON2 LINC02308 GC14P081410 RPS24P3
GH14J081208 Enhancer 1.2 FANTOM5 Ensembl ENCODE 16.3 +12.0 12013 1.4 BATF KLF5 ZNF316 ATF7 ETV6 IKZF2 SMARCA5 RXRA JUNB DPF2 GTF2A1 CEP128 GC14M081203 SNORA79 LOC101928504
GH14J081434 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 11.3 -214.4 -214445 3.1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 POLR2B FOS SP3 NFYC REST STON2 GTF2A1 LINC02308 DYNLL1P2
GH14J080996 Enhancer 0.9 FANTOM5 Ensembl 21.3 +224.9 224865 0.6 CTCF PKNOX1 CEBPG RAD21 ZNF143 SMC3 FOSL2 FOS BCLAF1 CREM GTF2A1 CEP128 SNORA79 NMNAT1P1 RPL17P3 GC14P080982 TSHR
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around GTF2A1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the GTF2A1 gene promoter:
  • GATA-1
  • ZID
  • POU6F1 (c2)
  • FOXJ2
  • MyoD

Genomic Locations for GTF2A1 Gene

Genomic Locations for GTF2A1 Gene
45,926 bases
Minus strand
45,926 bases
Minus strand

Genomic View for GTF2A1 Gene

Genes around GTF2A1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GTF2A1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GTF2A1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GTF2A1 Gene

Proteins for GTF2A1 Gene

  • Protein details for GTF2A1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Transcription initiation factor IIA subunit 1
    Protein Accession:
    Secondary Accessions:
    • Q3KNQ9

    Protein attributes for GTF2A1 Gene

    376 amino acids
    Molecular mass:
    41514 Da
    Quaternary structure:
    • TFIIA is a heterodimer of the large unprocessed subunit 1 and a small subunit gamma. It was originally believed to be a heterotrimer of an alpha (p35), a beta (p19) and a gamma subunit (p12). TFIIA forms a complex with TBP.

    Three dimensional structures from OCA and Proteopedia for GTF2A1 Gene

    Alternative splice isoforms for GTF2A1 Gene


neXtProt entry for GTF2A1 Gene

Post-translational modifications for GTF2A1 Gene

  • The alpha and beta subunits are postranslationally produced from the precursor form by TASP1. The cleavage promotes proteasomal degradation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for GTF2A1 Gene

No data available for DME Specific Peptides for GTF2A1 Gene

Domains & Families for GTF2A1 Gene

Gene Families for GTF2A1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for GTF2A1 Gene

Suggested Antigen Peptide Sequences for GTF2A1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the TFIIA subunit 1 family.
  • Belongs to the TFIIA subunit 1 family.
genes like me logo Genes that share domains with GTF2A1: view

Function for GTF2A1 Gene

Molecular function for GTF2A1 Gene

UniProtKB/Swiss-Prot Function:
TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation. TFIIA in a complex with TBP mediates transcriptional activity.

Phenotypes From GWAS Catalog for GTF2A1 Gene

Gene Ontology (GO) - Molecular Function for GTF2A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001103 RNA polymerase II repressing transcription factor binding IEA --
GO:0003677 DNA binding IDA 7724559
GO:0003713 transcription coactivator activity TAS 8224850
GO:0005515 protein binding IPI 8006019
GO:0008134 transcription factor binding IPI 8626665
genes like me logo Genes that share ontologies with GTF2A1: view
genes like me logo Genes that share phenotypes with GTF2A1: view

Animal Models for GTF2A1 Gene

MGI Knock Outs for GTF2A1:

Animal Model Products

miRNA for GTF2A1 Gene

miRTarBase miRNAs that target GTF2A1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for GTF2A1 Gene

Localization for GTF2A1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GTF2A1 Gene

Subcellular locations from

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 GTF2A1 gene
Compartment Confidence
nucleus 5
cytosol 5
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
  • Cytosol (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for GTF2A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005669 transcription factor TFIID complex IDA 27193682
GO:0005672 transcription factor TFIIA complex IDA 7724559
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with GTF2A1: view

Pathways & Interactions for GTF2A1 Gene

genes like me logo Genes that share pathways with GTF2A1: view

SIGNOR curated interactions for GTF2A1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for GTF2A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription by RNA polymerase II IDA,TAS --
GO:0006367 transcription initiation from RNA polymerase II promoter TAS --
GO:0006368 transcription elongation from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with GTF2A1: view

Drugs & Compounds for GTF2A1 Gene

No Compound Related Data Available

Transcripts for GTF2A1 Gene

mRNA/cDNA for GTF2A1 Gene

Unigene Clusters for GTF2A1 Gene

General transcription factor IIA, 1, 19/37kDa:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for GTF2A1 Gene

No ASD Table

Relevant External Links for GTF2A1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for GTF2A1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GTF2A1 Gene

Protein differential expression in normal tissues from HIPED for GTF2A1 Gene

This gene is overexpressed in Fetal Brain (9.6), CD4 Tcells (8.6), and Peripheral blood mononuclear cells (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for GTF2A1 Gene

Protein tissue co-expression partners for GTF2A1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of GTF2A1 Gene:


SOURCE GeneReport for Unigene cluster for GTF2A1 Gene:


Evidence on tissue expression from TISSUES for GTF2A1 Gene

  • Liver(4.2)
  • Nervous system(2.5)
genes like me logo Genes that share expression patterns with GTF2A1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for GTF2A1 Gene

Orthologs for GTF2A1 Gene

This gene was present in the common ancestor of animals.

Orthologs for GTF2A1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia GTF2A1 34 33
  • 99.56 (n)
(Bos Taurus)
Mammalia GTF2A1 34 33
  • 94.46 (n)
(Canis familiaris)
Mammalia GTF2A1 34 33
  • 93.26 (n)
(Ornithorhynchus anatinus)
Mammalia GTF2A1 34
  • 93 (a)
(Rattus norvegicus)
Mammalia Gtf2a1 33
  • 92.11 (n)
(Mus musculus)
Mammalia Gtf2a1 16 34 33
  • 90.07 (n)
Gm5435 34
  • 87 (a)
(Monodelphis domestica)
Mammalia GTF2A1 34
  • 90 (a)
(Gallus gallus)
Aves GTF2A1 34 33
  • 84.04 (n)
(Anolis carolinensis)
Reptilia GTF2A1 34
  • 84 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia gtf2a1 33
  • 77.87 (n)
Str.5955 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.29248 33
(Danio rerio)
Actinopterygii gtf2a1 34 33
  • 71.59 (n)
Dr.24669 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1071 33
fruit fly
(Drosophila melanogaster)
Insecta TfIIA-L 34
  • 34 (a)
sea squirt
(Ciona savignyi)
Ascidiacea Cin.3030 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3030 33
Species where no ortholog for GTF2A1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for GTF2A1 Gene

Gene Tree for GTF2A1 (if available)
Gene Tree for GTF2A1 (if available)
Evolutionary constrained regions (ECRs) for GTF2A1: view image

Paralogs for GTF2A1 Gene

No data available for Paralogs for GTF2A1 Gene

Variants for GTF2A1 Gene

Sequence variations from dbSNP and Humsavar for GTF2A1 Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
VAR_035667 A breast cancer sample p.Leu30Val
rs1000042907 -- 81,221,684(-) C/G upstream_transcript_variant
rs1000095806 -- 81,177,870(-) C/T 3_prime_UTR_variant
rs1000116247 -- 81,194,398(-) A/C/G intron_variant
rs1000164876 -- 81,179,548(-) A/G 3_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for GTF2A1 Gene

Variant ID Type Subtype PubMed ID
esv3581341 CNV loss 25503493
esv3581342 CNV loss 25503493
esv3635076 CNV gain 21293372
nsv832841 CNV gain 17160897

Variation tolerance for GTF2A1 Gene

Residual Variation Intolerance Score: 21.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.45; 9.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GTF2A1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GTF2A1 Gene

Disorders for GTF2A1 Gene

Additional Disease Information for GTF2A1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for GTF2A1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GTF2A1 Gene

Publications for GTF2A1 Gene

  1. A single cDNA, hTFIIA/alpha, encodes both the p35 and p19 subunits of human TFIIA. (PMID: 8224848) DeJong J … Roeder RG (Genes & development 1993) 2 3 4 22 58
  2. Cleavage and proteasome-mediated degradation of the basal transcription factor TFIIA. (PMID: 15257296) Høiby T … Stunnenberg HG (The EMBO journal 2004) 3 4 22 58
  3. Taf(II) 250 phosphorylates human transcription factor IIA on serine residues important for TBP binding and transcription activity. (PMID: 11278496) Solow S … Lieberman PM (The Journal of biological chemistry 2001) 3 4 22 58
  4. Evaluating new candidate SNPs as low penetrance risk factors in sporadic breast cancer: a two-stage Spanish case-control study. (PMID: 18950845) Vega A … Carracedo A (Gynecologic oncology 2009) 3 44 58
  5. Interaction of polymorphisms in the interleukin 1B-31 and general transcription factor 2A1 genes on the susceptibility to gastric cancer. (PMID: 17596959) Lee KA … Kim JW (Cytokine 2007) 3 44 58

Products for GTF2A1 Gene

Sources for GTF2A1 Gene

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