Human Gene GTF3C4 (uc010mzv.3) Description and Page Index
  Description: Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa (GTF3C4), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:135,545,728-135,565,470 Size: 19,743 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr9:135,545,986-135,564,332 Size: 18,347 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:135,545,728-135,565,470)mRNA (may differ from genome)Protein (822 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TF3C4_HUMAN
DESCRIPTION: RecName: Full=General transcription factor 3C polypeptide 4; EC=2.3.1.48; AltName: Full=TF3C-delta; AltName: Full=Transcription factor IIIC 90 kDa subunit; Short=TFIIIC 90 kDa subunit; Short=TFIIIC90; AltName: Full=Transcription factor IIIC subunit delta;
FUNCTION: Essential for RNA polymerase III to make a number of small nuclear and cytoplasmic RNAs, including 5S RNA, tRNA, and adenovirus-associated (VA) RNA of both cellular and viral origin. Has histone acetyltransferase activity (HAT) with unique specificity for free and nucleosomal H3. May cooperate with GTF3C5 in facilitating the recruitment of TFIIIB and RNA polymerase through direct interactions with BRF1, POLR3C and POLR3F. May be localized close to the A box.
CATALYTIC ACTIVITY: Acetyl-CoA + [histone] = CoA + acetyl- [histone].
SUBUNIT: Part of the TFIIIC subcomplex TFIIIC2, consisting of six subunits, GTF3C1, GTF3C2, GTF3C3, GTF3C4, GTF3C5 and GTF3C6. Interacts with BRF1, GTF3C1, GTF3C2, GTF3C5, GTF3C6, POLR3C and POLR3F.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Belongs to the TFIIIC subunit 4 family.
SEQUENCE CAUTION: Sequence=AAH11619.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): GTF3C4
CDC HuGE Published Literature: GTF3C4
Positive Disease Associations: Schizophrenia
Related Studies:
  1. Schizophrenia
    , , . [PubMed 0]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 8.34 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 189.99 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -130.70258-0.507 Picture PostScript Text
3' UTR -353.081138-0.310 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR024761 - TFIIIC_delta_N
IPR024764 - TFIIIC_Znf

Pfam Domains:
PF12657 - Transcription factor IIIC subunit delta N-term
PF12660 - Putative zinc-finger of transcription factor IIIC complex

ModBase Predicted Comparative 3D Structure on Q9UKN8
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0004402 histone acetyltransferase activity
GO:0005515 protein binding
GO:0008047 enzyme activator activity
GO:0016740 transferase activity
GO:0016746 transferase activity, transferring acyl groups

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006383 transcription from RNA polymerase III promoter
GO:0006384 transcription initiation from RNA polymerase III promoter
GO:0016573 histone acetylation
GO:0042791 5S class rRNA transcription from RNA polymerase III type 1 promoter
GO:0042797 tRNA transcription from RNA polymerase III promoter
GO:0043085 positive regulation of catalytic activity

Cellular Component:
GO:0000127 transcription factor TFIIIC complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005739 mitochondrion


-  Descriptions from all associated GenBank mRNAs
  BC060821 - Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa, mRNA (cDNA clone IMAGE:4825930), with apparent retained intron.
AF142328 - Homo sapiens transcription factor IIIC90 mRNA, complete cds.
JD429961 - Sequence 410985 from Patent EP1572962.
JD556807 - Sequence 537831 from Patent EP1572962.
BC094774 - Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa, mRNA (cDNA clone MGC:104675 IMAGE:4830453), complete cds.
BC011619 - Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa, mRNA (cDNA clone IMAGE:3960260), partial cds.
BC022787 - Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa, mRNA (cDNA clone IMAGE:3845225), partial cds.
JD426382 - Sequence 407406 from Patent EP1572962.
BC104755 - Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa, mRNA (cDNA clone MGC:132415 IMAGE:8143758), complete cds.
BC112245 - Homo sapiens general transcription factor IIIC, polypeptide 4, 90kDa, mRNA (cDNA clone MGC:138450 IMAGE:8327713), complete cds.
DQ583454 - Homo sapiens piRNA piR-50566, complete sequence.
JD440460 - Sequence 421484 from Patent EP1572962.
AB529214 - Synthetic construct DNA, clone: pF1KB0410, Homo sapiens GTF3C4 gene for general transcription factor IIIC, polypeptide 4, 90kDa, without stop codon, in Flexi system.
KJ897996 - Synthetic construct Homo sapiens clone ccsbBroadEn_07390 GTF3C4 gene, encodes complete protein.
AK024655 - Homo sapiens cDNA: FLJ21002 fis, clone CAE03545, highly similar to AF142328 Homo sapiens transcription factor IIIC90 mRNA.
AK027509 - Homo sapiens cDNA FLJ14603 fis, clone NT2RP1000357, highly similar to General transcription factor 3C polypeptide 4 (EC 2.3.1.48).
AK126436 - Homo sapiens cDNA FLJ44472 fis, clone UTERU2029742.
JD170547 - Sequence 151571 from Patent EP1572962.
JD203102 - Sequence 184126 from Patent EP1572962.
AJ420451 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 909091.
JD308665 - Sequence 289689 from Patent EP1572962.
DQ581889 - Homo sapiens piRNA piR-50001, complete sequence.
AF086460 - Homo sapiens full length insert cDNA clone ZD85A02.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_RNApol3Pathway - RNA polymerase III transcription

Reactome (by CSHL, EBI, and GO)

Protein Q9UKN8 (Reactome details) participates in the following event(s):

R-HSA-76054 Binding of TFIIIC to TFIIIA:Type I Promoter complex
R-HSA-83788 Binding of TFIIIC to Type 2 promoter
R-HSA-83723 Binding of TFIIIB to TFIIIC:TFIIIA:Type I Promoter complex
R-HSA-83790 Binding of TFIIIB to TFIIC: Type 2 Promoter Complex
R-HSA-112055 RNA Polymerase III Abortive Initiation At Type 1 Open Promoters
R-HSA-112153 RNA Polymerase III Simple Start Sequence Initiation At Type 1 Promoters
R-HSA-76060 RNA Polymerase III Promoter Opening at Type 1 Promoters
R-HSA-112149 RNA Polymerase III Abortive Initiation At Type 2 Open Promoters
R-HSA-112155 RNA Polymerase III Simple Start Sequence Initiation At Type 2 Promoters
R-HSA-112150 RNA Polymerase III Promoter Opening at Type 2 Promoters
R-HSA-76056 Recruitment of RNA polymerase III to TFIIIB:TFIIIC:TFIIIA:Type 1 Promoter Complex
R-HSA-83805 Recruitment of RNA Polymerase III to the TFIIIB:TFIIIC: Type 2 Promoter Complex
R-HSA-76061 RNA Polymerase III Transcription Initiation From Type 1 Promoter
R-HSA-76066 RNA Polymerase III Transcription Initiation From Type 2 Promoter
R-HSA-749476 RNA Polymerase III Abortive And Retractive Initiation
R-HSA-76046 RNA Polymerase III Transcription Initiation
R-HSA-74158 RNA Polymerase III Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_012204, NP_036336, Q5VZJ7, Q9UKN8, TF3C4_HUMAN
UCSC ID: uc010mzv.3
RefSeq Accession: NM_012204
Protein: Q9UKN8 (aka TF3C4_HUMAN or T3C4_HUMAN)
CCDS: CCDS6953.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_012204.2
exon count: 5CDS single in 3' UTR: no RNA size: 3866
ORF size: 2469CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5138.00frame shift in genome: no % Coverage: 99.97
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.