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

Gene ID: 83602, updated on 8-Dec-2022

Summary

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 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, Apr 2022]
Expression
Ubiquitous expression in whole brain E14.5 (RPKM 9.2), CNS E11.5 (RPKM 8.9) and 28 other tissues See more
Orthologs
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Genomic context

See Gtf2a1 in Genome Data Viewer
Location:
12 D3; 12
Exon count:
11
Annotation release Status Assembly Chr Location
109 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 predicted gene, 25776 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

Expression

  • 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

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
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
PubMed 
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 ISO
Inferred from Sequence Orthology
more info
 
part_of transcription preinitiation complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

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_031391.2NP_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:318378
    TFIIA_alpha_beta_like; Precursor of TFIIA alpha and beta subunits and similar proteins
    pfam03153
    Location:13378
    TFIIA; Transcription factor IIA, alpha/beta subunit
  2. NM_175335.3NP_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/Swiss-Prot
    Q99PM3
    UniProtKB/TrEMBL
    Q0VGZ0, Q149E9
    Related
    ENSMUSP00000068562.7, ENSMUST00000063314.7
    Conserved Domains (3) summary
    cd07976
    Location:279339
    TFIIA_alpha_beta_like; Precursor of TFIIA alpha and beta subunits and similar proteins
    cl21683
    Location:221
    TFIIA_alpha_beta_like; Precursor of TFIIA alpha and beta subunits and similar proteins
    pfam03153
    Location:1339
    TFIIA; Transcription factor IIA, alpha/beta subunit

RefSeqs of Annotated Genomes: Mus musculus 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 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_017315260.3XP_017170749.1  transcription initiation factor IIA subunit 1 isoform X1

    Conserved Domains (1) summary
    pfam03153
    Location:222328
    TFIIA; Transcription factor IIA, alpha/beta subunit