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    Gtf2a1 general transcription factor II A, 1 [ Mus musculus (house mouse) ]

    Gene ID: 83602, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Gtf2a1provided by MGI
    Official Full Name
    general transcription factor II A, 1provided by MGI
    Primary source
    MGI:MGI:1933277
    See related
    Ensembl:ENSMUSG00000020962 AllianceGenome:MGI:1933277
    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
    Tfiia1; TfIIAa/b; 6330549H03Rik
    Summary
    Enables RNA polymerase II-specific DNA-binding transcription factor binding activity. Predicted to be involved in positive regulation of transcription initiation by RNA polymerase II and transcription by RNA polymerase II. Located in cytoplasm and nucleus. Part of transcription factor TFIIA complex. Is expressed in several structures, including early conceptus; genitourinary system; liver; olfactory epithelium; and spleen. Orthologous to human GTF2A1 (general transcription factor IIA subunit 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in whole brain E14.5 (RPKM 9.2), CNS E11.5 (RPKM 8.9) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Gtf2a1 in Genome Data Viewer
    Location:
    12 D3; 12 45.02 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (91522036..91559102, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (91555262..91590487, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene thyroid stimulating hormone receptor Neighboring gene phosphoglycerate mutase family member 5 pseudogene Neighboring gene predicted gene, 40541 Neighboring gene STARR-seq mESC enhancer starr_32930 Neighboring gene STARR-seq mESC enhancer starr_32931 Neighboring gene STARR-seq mESC enhancer starr_32932 Neighboring gene predicted gene, 25776 Neighboring gene STARR-seq mESC enhancer starr_32934 Neighboring gene stonin 2 Neighboring gene VISTA enhancer mm815 Neighboring gene ragulator complex protein LAMTOR2 pseudogene Neighboring gene predicted gene, 16876

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. An improved Flp deleter mouse in C57Bl/6 based on Flpo recombinase. Kranz A, et al. Genesis, 2010 Aug. PMID 20506501
    2. Taspase1 orchestrates fetal liver hematopoietic stem cell and vertebrae fates by cleaving TFIIA. Niizuma H, et al. JCI Insight, 2021 Aug 9. PMID 34156981, Free PMC Article
    3. Specific interaction with transcription factor IIA and localization of the mammalian TATA-binding protein-like protein (TLP/TRF2/TLF). Nakadai T, et al. J Biol Chem, 2004 Feb 27. PMID 14570910
    4. The role of general initiation factors in transcription by RNA polymerase II. Roeder RG. Trends Biochem Sci, 1996 Sep. PMID 8870495
    5. Developmental and cell type-specific regulation of core promoter transcription factors in germ cells of frogs and mice. Xiao L, et al. Gene Expr Patterns, 2006 Apr. PMID 16412700

    See all (45) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TFIIA is the principal TASP1 substrate that orchestrates craniofacial morphogenesis.
      Title: Taspase1-dependent TFIIA cleavage coordinates head morphogenesis by limiting Cdkn2a locus transcription.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation
    • Transposon induced (1) 

    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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II core promoter sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II general transcription initiation factor activity IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables TBP-class protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of transcription factor TFIIA complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription factor TFIID complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription factor TFIID complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription preinitiation complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    transcription initiation factor IIA subunit 1
    Names
    TFIIA alpha/beta
    general transcription factor IIA subunit 1
    general transcription factor IIa, 1 (37kD and 19kD subunits)

    NCBI Reference Sequences (RefSeq)

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    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_031391.2 → NP_113568.2  transcription initiation factor IIA subunit 1 isoform 1

      See identical proteins and their annotated locations for NP_113568.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK048711, AW552430, BC079909, BX526091, EL956882
      Consensus CDS
      CCDS26089.1
      UniProtKB/Swiss-Prot
      Q8C812, Q99PM3
      UniProtKB/TrEMBL
      Q0VGZ0
      Related
      ENSMUSP00000021345.7, ENSMUST00000021345.14
      Conserved Domains (2) summary
      cd07976
      Location:318 → 378
      TFIIA_alpha_beta_like; Precursor of TFIIA alpha and beta subunits and similar proteins
      pfam03153
      Location:13 → 378
      TFIIA; Transcription factor IIA, alpha/beta subunit

    2. NM_175335.3 → NP_780544.1  transcription initiation factor IIA subunit 1 isoform 2

      See identical proteins and their annotated locations for NP_780544.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has multiple differences in the presence and absence of exons at its 5' end, compared to variant 1. These differences produce a unique 5' UTR and cause translation initiation at a downstream start codon, compared to variant 1. The encoded protein (isoform 2) is shorter than isoform 1.
      Source sequence(s)
      AK048711, AW552430, BC079909, BX526091
      Consensus CDS
      CCDS49136.1
      UniProtKB/TrEMBL
      Q0VGZ0, Q149E9
      Related
      ENSMUSP00000068562.7, ENSMUST00000063314.7
      Conserved Domains (3) summary
      cd07976
      Location:279 → 339
      TFIIA_alpha_beta_like; Precursor of TFIIA alpha and beta subunits and similar proteins
      cl21683
      Location:2 → 21
      TFIIA_alpha_beta_like; Precursor of TFIIA alpha and beta subunits and similar proteins
      pfam03153
      Location:1 → 339
      TFIIA; Transcription factor IIA, alpha/beta subunit

    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_000078.7 Reference GRCm39 C57BL/6J

      Range
      91522036..91559102 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017315260.3 → XP_017170749.1  transcription initiation factor IIA subunit 1 isoform X1

      UniProtKB/TrEMBL
      Q0VGZ0
      Conserved Domains (1) summary
      pfam03153
      Location:222 → 328
      TFIIA; Transcription factor IIA, alpha/beta subunit
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99PM3.2 GenPept UniProtKB/Swiss-Prot:Q99PM3

    Gene LinkOut

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

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