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    GTF2F2 general transcription factor IIF subunit 2 [ Homo sapiens (human) ]

    Gene ID: 2963, updated on 3-Nov-2024

    Summary

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    Official Symbol
    GTF2F2provided by HGNC
    Official Full Name
    general transcription factor IIF subunit 2provided by HGNC
    Primary source
    HGNC:HGNC:4653
    See related
    Ensembl:ENSG00000188342 MIM:189969; AllianceGenome:HGNC:4653
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    BTF4; RAP30; TF2F2; TFIIF
    Summary
    Predicted to enable RNA polymerase II general transcription initiation factor activity. Involved in positive regulation of transcription by RNA polymerase II; transcription elongation by RNA polymerase II; and transcription initiation at RNA polymerase II promoter. Located in microtubule cytoskeleton and nucleoplasm. Part of transcription factor TFIIF complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in skin (RPKM 5.5), adrenal (RPKM 5.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See GTF2F2 in Genome Data Viewer
    Location:
    13q14.12-q14.13
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (45120510..45284893)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (44340562..44504949)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (45694645..45859028)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene RN7SK pseudogene 3 Neighboring gene uncharacterized LOC101929259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5310 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:45694275-45694918 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:45694919-45695560 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:45697873-45698066 Neighboring gene RN7SK pseudogene 4 Neighboring gene RNA, U6 small nuclear 69, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5311 Neighboring gene uncharacterized LOC124903168 Neighboring gene potassium channel tetramerization domain containing 4 Neighboring gene uncharacterized LOC105370190 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr13:45883380-45884072 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5312 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:45904287-45904787 Neighboring gene small nucleolar RNA, H/ACA box 31B Neighboring gene small nucleolar RNA, H/ACA box 31 Neighboring gene tumor protein, translationally-controlled 1

    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 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. Nucleotide and amino acid sequence of RAP30. Horikoshi M, et al. Nucleic Acids Res, 1991 Oct 11. PMID 1840667, Free PMC Article
    2. Structure and associated DNA-helicase activity of a general transcription initiation factor that binds to RNA polymerase II. Sopta M, et al. Nature, 1989 Oct 5. PMID 2477704
    3. A region within the RAP74 subunit of human transcription factor IIF is critical for initiation but dispensable for complex assembly. Ren D, et al. Mol Cell Biol, 1999 Nov. PMID 10523626, Free PMC Article
    4. Structural homology between the Rap30 DNA-binding domain and linker histone H5: implications for preinitiation complex assembly. Groft CM, et al. Proc Natl Acad Sci U S A, 1998 Aug 4. PMID 9689043, Free PMC Article
    5. Isolation of three proteins that bind to mammalian RNA polymerase II. Sopta M, et al. J Biol Chem, 1985 Aug 25. PMID 3860504

    See all (142) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data show that TFIIF has an important role in stabilizing TFIIB within the PIC and after transcription initiates.
      Title: Transcription factor TFIIF is not required for initiation by RNA polymerase II, but it is essential to stabilize transcription factor TFIIB in early elongation complexes.
    2. NMR and thermodynamic studies further elucidate the complex molecular mechanism by which TFIIF and FCP1 cooperate for RNAPII recycling.
      Title: NMR structure of a complex formed by the carboxyl-terminal domain of human RAP74 and a phosphorylated peptide from the central domain of the FCP1 phosphatase.
    3. Results pinpoint critical residues for RNA polymerase II subunit 5 binding to RAP30 and/or to HBx, and identify these residues in both mammalian cells and in an in vitro binding assay.
      Title: Mutational analysis of human RNA polymerase II subunit 5 (RPB5): the residues critical for interactions with TFIIF subunit RAP30 and hepatitis B virus X protein.
    Submit: New GeneRIF Correction

    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

    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 The transcription factors and kinases c-Jun, JNK, MEK, p38 MAPK, STAT-3, JAK-1, TFII D, TFII F, eIF-4E, and RNA polymerase II are induced by HIV-1 gp120 PubMed
    Tat tat HIV-1 Tat interacts with the RNA polymerase II holoenzyme and transcription preinitiation complexes, which include TFIIF, during Tat-mediated transactivation of the HIV-1 LTR PubMed
    tat TFIIF synergizes with HIV-1 Tat and the cellular co-activator Tat-SF1 during Tat-mediated transactivation of the HIV-1 LTR promoter PubMed
    tat HIV-1 Tat directly interacts with the RAP30 subunit of TFIIF as demonstrated by Tat-affinity column purification PubMed
    tat TFIIF is required for both basal and HIV-1 Tat-activated transcription 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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II general transcription initiation factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in transcription elongation by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in transcription initiation at RNA polymerase II promoter IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription initiation at RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in transcription initiation at RNA polymerase II promoter ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in microtubule cytoskeleton IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus HDA PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of transcription factor TFIIF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription factor TFIIF complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    general transcription factor IIF subunit 2
    Names
    ATP-dependent helicase GTF2F2
    TFIIF-beta
    general transcription factor IIF 30 kDa subunit
    general transcription factor IIF, polypeptide 2, 30kDa
    transcription initiation factor IIF subunit beta
    transcription initiation factor RAP30
    NP_004119.1
    XP_011533354.1
    XP_011533355.1
    XP_016876040.1
    XP_054230456.1
    XP_054230457.1
    XP_054230458.1

    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_004128.3 → NP_004119.1  general transcription factor IIF subunit 2

      See identical proteins and their annotated locations for NP_004119.1

      Status: VALIDATED

      Source sequence(s)
      AK291545, AL138963, BC001771, CA429230, CB124466, DB252856
      Consensus CDS
      CCDS9395.1
      UniProtKB/Swiss-Prot
      A6NNS5, P13984, Q5W0H3
      Related
      ENSP00000340823.6, ENST00000340473.8
      Conserved Domains (1) summary
      cl02122
      Location:6 → 247
      TFIIF_beta; Transcription initiation factor IIF, beta subunit

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      45120510..45284893
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011535052.4 → XP_011533354.1  general transcription factor IIF subunit 2 isoform X1

      Conserved Domains (1) summary
      pfam02270
      Location:13 → 262
      TFIIF_beta; Transcription initiation factor IIF, beta subunit

    2. XM_011535053.4 → XP_011533355.1  general transcription factor IIF subunit 2 isoform X3

      Conserved Domains (1) summary
      cd07980
      Location:5 → 103
      TFIIF_beta; Transcription initiation factor IIF, beta subunit

    3. XM_017020551.2 → XP_016876040.1  general transcription factor IIF subunit 2 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      44340562..44504949
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054374481.1 → XP_054230456.1  general transcription factor IIF subunit 2 isoform X1

    2. XM_054374483.1 → XP_054230458.1  general transcription factor IIF subunit 2 isoform X3

    3. XM_054374482.1 → XP_054230457.1  general transcription factor IIF subunit 2 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P13984.2 GenPept UniProtKB/Swiss-Prot:P13984

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