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    GTF3C4 general transcription factor IIIC subunit 4 [ Homo sapiens (human) ]

    Gene ID: 9329, updated on 14-Nov-2024

    Summary

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    Official Symbol
    GTF3C4provided by HGNC
    Official Full Name
    general transcription factor IIIC subunit 4provided by HGNC
    Primary source
    HGNC:HGNC:4667
    See related
    Ensembl:ENSG00000125484 MIM:604892; AllianceGenome:HGNC:4667
    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
    KAT12; TFIII90; TFIIIC90; TFIIIC290; TF3C-delta; TFIIICDELTA
    Summary
    Enables RNA polymerase III general transcription initiation factor activity. Predicted to be involved in 5S class rRNA transcription by RNA polymerase III; tRNA transcription by RNA polymerase III; and transcription initiation at RNA polymerase III promoter. Located in mitochondrion and nucleoplasm. Part of transcription factor TFIIIC complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 5.9), testis (RPKM 5.5) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See GTF3C4 in Genome Data Viewer
    Location:
    9q34.13
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (132670035..132694955)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (144881255..144906173)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (135545422..135570342)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:135462359-135463211 Neighboring gene NANOG hESC enhancer GRCh37_chr9:135467821-135468322 Neighboring gene BarH like homeobox 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:135486212-135486944 Neighboring gene DEAD-box helicase 31 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:135545227-135546094 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29221 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:135597764-135598270 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:135599285-135599790 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:135608498-135608998 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:135608999-135609499 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:135620695-135621194 Neighboring gene adenylate kinase 8 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29222 Neighboring gene Sharpr-MPRA regulatory region 7884 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:135683689-135684190 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:135711155-135711317 Neighboring gene U6 spliceosomal RNA Neighboring gene ReSE screen-validated silencer GRCh37_chr9:135729901-135730092 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:135731149-135731650 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:135731651-135732150 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:135732573-135733346 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:135738096-135738827 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29223 Neighboring gene sperm acrosome associated 9

    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. Cloning and characterization of a TFIIIC2 subunit (TFIIIC beta) whose presence correlates with activation of RNA polymerase III-mediated transcription by adenovirus E1A expression and serum factors. Sinn E, et al. Genes Dev, 1995 Mar 15. PMID 7729686
    2. USP11-mediated LSH deubiquitination inhibits ferroptosis in colorectal cancer through epigenetic activation of CYP24A1. Duan J, et al. Cell Death Dis, 2023 Jul 6. PMID 37414755, Free PMC Article
    3. Cloning and characterization of two evolutionarily conserved subunits (TFIIIC102 and TFIIIC63) of human TFIIIC and their involvement in functional interactions with TFIIIB and RNA polymerase III. Hsieh YJ, et al. Mol Cell Biol, 1999 Jul. PMID 10373544, Free PMC Article
    4. The TFIIIC90 subunit of TFIIIC interacts with multiple components of the RNA polymerase III machinery and contains a histone-specific acetyltransferase activity. Hsieh YJ, et al. Mol Cell Biol, 1999 Nov. PMID 10523658, Free PMC Article
    5. A whole genome association study of mother-to-child transmission of HIV in Malawi. Joubert BR, et al. Genome Med, 2010. PMID 20487506, Free PMC Article

    See all (117) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
      Title: A whole genome association study of mother-to-child transmission of HIV in Malawi.
    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)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat HIV-1 Tat upregulates the transcription by RNA polymerase III of co-transfected or endogenous cellular Alu-repeated sequences by activating transcription factor TFIIIC 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

    Clone Names

    • FLJ21002, MGC138450

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    contributes_to DNA binding IC
    Inferred by Curator
    more info
    		 PubMed 
    enables RNA polymerase III general transcription initiation factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H2AK5 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2AK9 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2BK12 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2BK5 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K122 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K14 acetyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K18 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K23 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K27 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K36 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K4 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K56 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K9 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K12 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K16 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K5 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H4K8 acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in 5S class rRNA transcription by RNA polymerase III IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA transcription by RNA polymerase III IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in transcription by RNA polymerase III IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in transcription initiation at RNA polymerase III promoter IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrion 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
    		  
    part_of transcription factor TFIIIC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription factor TFIIIC complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    general transcription factor 3C polypeptide 4
    Names
    TFIIIC 90 kDa subunit
    general transcription factor 3C 4
    general transcription factor IIIC, polypeptide 4, 90kDa
    transcription factor IIIC 90 kDa subunit
    transcription factor IIIC subunit delta
    NP_036336.2

    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_012204.4 → NP_036336.2  general transcription factor 3C polypeptide 4

      See identical proteins and their annotated locations for NP_036336.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript and encodes the functional protein.
      Source sequence(s)
      AB072895, AK027509, AL160165, BC060821, BC112245
      Consensus CDS
      CCDS6953.1
      UniProtKB/Swiss-Prot
      Q5VZJ7, Q9UKN8
      Related
      ENSP00000361219.4, ENST00000372146.5
      Conserved Domains (2) summary
      pfam12660
      Location:745 → 817
      zf-TFIIIC; Putative zinc-finger of transcription factor IIIC complex
      pfam12657
      Location:65 → 254
      TFIIIC_delta; Transcription factor IIIC subunit delta N-term

    RNA

    1. NR_133925.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB072895, AK027509, AL160165, BC060821, BM974523

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      132670035..132694955
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      144881255..144906173
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9UKN8.2 GenPept UniProtKB/Swiss-Prot:Q9UKN8

    Gene LinkOut

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

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