U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Gtf2a2 general transcription factor II A, 2 [ Mus musculus (house mouse) ]

    Gene ID: 235459, updated on 5-Mar-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Gtf2a2provided by MGI
    Official Full Name
    general transcription factor II A, 2provided by MGI
    Primary source
    MGI:MGI:1933289
    See related
    Ensembl:ENSMUSG00000033543 AllianceGenome:MGI:1933289
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    TfIIg; Tfiia2; TFIIA-gamma
    Summary
    Enables RNA polymerase II-specific DNA-binding transcription factor binding activity. Predicted to be involved in RNA polymerase II preinitiation complex assembly. Predicted to be located in cell junction and nucleoplasm. Predicted to be part of transcription factor TFIIA complex and transcription factor TFIID complex. Orthologous to human GTF2A2 (general transcription factor IIA subunit 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis adult (RPKM 12.1), liver E14 (RPKM 8.8) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    9 D; 9 39.18 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (69919830..69930148)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (70012548..70022866)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 31587 Neighboring gene STARR-positive B cell enhancer ABC_E10561 Neighboring gene STARR-positive B cell enhancer ABC_E6762 Neighboring gene BCL2/adenovirus E1B interacting protein 2 Neighboring gene STARR-seq mESC enhancer starr_24528 Neighboring gene STARR-seq mESC enhancer starr_24529 Neighboring gene glucosaminyl (N-acetyl) transferase 3, mucin type Neighboring gene STARR-seq mESC enhancer starr_24532 Neighboring gene predicted gene, 39369

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The role of general initiation factors in transcription by RNA polymerase II. Roeder RG. Trends Biochem Sci, 1996 Sep. PMID 8870495
    2. TFIIAalpha/beta-like factor is encoded by a germ cell-specific gene whose expression is up-regulated with other general transcription factors during spermatogenesis in the mouse. Han SY, et al. Biol Reprod, 2001 Feb. PMID 11159353
    3. The homeobox gene Mohawk represses transcription by recruiting the sin3A/HDAC co-repressor complex. Anderson DM, et al. Dev Dyn, 2009 Mar. PMID 19235719
    4. Taspase1-dependent TFIIA cleavage coordinates head morphogenesis by limiting Cdkn2a locus transcription. Takeda S, et al. J Clin Invest, 2015 Mar 2. PMID 25664857, Free PMC Article
    5. Defective transcription initiation causes postnatal growth failure in a mouse model of nucleotide excision repair (NER) progeria. Kamileri I, et al. Proc Natl Acad Sci U S A, 2012 Feb 21. PMID 22323595, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA polymerase II general transcription initiation factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II general transcription initiation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II general transcription initiation factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables TBP-class protein binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables TBP-class protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA polymerase II preinitiation complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in RNA polymerase II preinitiation complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in RNA polymerase II preinitiation complex assembly NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription initiation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription initiation at RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cell junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription factor TFIIA complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription factor TFIIA complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription factor TFIID complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    transcription initiation factor IIA subunit 2
    Names
    general transcription factor IIA, 2 (12kD subunit)
    transcription initiation factor IIA gamma chain

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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.

    mRNA and Protein(s)

    1. NM_001039519.2 → NP_001034608.1  transcription initiation factor IIA subunit 2 isoform 1

      See identical proteins and their annotated locations for NP_001034608.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AK165466, BB842876, BG088284, CR514895
      Consensus CDS
      CCDS52851.1
      UniProtKB/Swiss-Prot
      Q80ZM7
      UniProtKB/TrEMBL
      D3Z793, Q3TE88
      Related
      ENSMUSP00000113501.2, ENSMUST00000118198.8
      Conserved Domains (1) summary
      COG5123
      Location:3 → 103
      TOA2; Transcription initiation factor IIA, gamma subunit [Transcription]

    2. NM_001282083.1 → NP_001269012.1  transcription initiation factor IIA subunit 2 isoform 1

      See identical proteins and their annotated locations for NP_001269012.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform.
      Source sequence(s)
      AK050621, AK165466, BB842876, BG088284, CR514895
      Consensus CDS
      CCDS52851.1
      UniProtKB/Swiss-Prot
      Q80ZM7
      UniProtKB/TrEMBL
      D3Z793, Q3TE88
      Related
      ENSMUSP00000113697.2, ENSMUST00000119413.8
      Conserved Domains (1) summary
      COG5123
      Location:3 → 103
      TOA2; Transcription initiation factor IIA, gamma subunit [Transcription]

    3. NM_001282084.1 → NP_001269013.1  transcription initiation factor IIA subunit 2 isoform 2

      See identical proteins and their annotated locations for NP_001269013.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an exon in the internal coding region, which leads to a translational frameshift, compared to variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK165466, BB842876, BG088284, CR514895
      Consensus CDS
      CCDS72269.1
      UniProtKB/TrEMBL
      D3Z7C2
      Related
      ENSMUSP00000113061.2, ENSMUST00000119905.8
      Conserved Domains (1) summary
      pfam02268
      Location:3 → 49
      TFIIA_gamma_N; Transcription initiation factor IIA, gamma subunit, helical domain

    RNA

    1. NR_104093.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK165466, BB842876, BC028551, CR514895
      Related
      ENSMUST00000116552.8

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      69919830..69930148
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006511116.2 → XP_006511179.1  transcription initiation factor IIA subunit 2 isoform X1

      See identical proteins and their annotated locations for XP_006511179.1

      UniProtKB/Swiss-Prot
      Q80ZM7
      UniProtKB/TrEMBL
      D3Z793, Q3TE88
      Conserved Domains (1) summary
      COG5123
      Location:3 → 103
      TOA2; Transcription initiation factor IIA, gamma subunit [Transcription]

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_199151.1: Suppressed sequence

      Description
      NM_199151.1: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80ZM7.2 GenPept UniProtKB/Swiss-Prot:Q80ZM7

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous