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

Gene ID: 9329, updated on 7-Apr-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
Predicted to enable enzyme activator activity. Predicted to contribute to DNA binding activity. Predicted to be involved in 5S class rRNA transcription by RNA polymerase III and tRNA transcription by RNA polymerase III. Located in mitochondrion and nucleoplasm. Part of transcription factor TFIIIC complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thyroid (RPKM 5.9), testis (RPKM 5.5) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
9q34.13
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (132670035..132694955)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (144881255..144906173)
105.20220307 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
  • 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. 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
  3. 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
  4. 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
  5. Identification, molecular cloning, and characterization of the sixth subunit of human transcription factor TFIIIC. Dumay-Odelot H, et al. J Biol Chem, 2007 Jun 8. PMID 17409385

See all (100) 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)

Genotypes

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 enzyme activator activity TAS
Traceable Author Statement
more info
 PubMed 
enables histone 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_2023_10

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

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