Human Gene TCF19 (ENST00000376257.8_5) from GENCODE V47lift37
  Description: transcription factor 19, transcript variant 1 (from RefSeq NM_007109.3)
Gencode Transcript: ENST00000376257.8_5
Gencode Gene: ENSG00000137310.13_8
Transcript (Including UTRs)
   Position: hg19 chr6:31,126,366-31,131,992 Size: 5,627 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr6:31,127,247-31,130,494 Size: 3,248 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:31,126,366-31,131,992)mRNA (may differ from genome)Protein (345 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TCF19_HUMAN
DESCRIPTION: RecName: Full=Transcription factor 19; Short=TCF-19; AltName: Full=Transcription factor SC1;
FUNCTION: Potential trans-activating factor that could play an important role in the transcription of genes required for the later stages of cell cycle progression.
SUBCELLULAR LOCATION: Nucleus (Potential).
DEVELOPMENTAL STAGE: Growth regulated.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Contains 1 FHA domain.
SIMILARITY: Contains 1 PHD-type zinc finger.
SEQUENCE CAUTION: Sequence=AAB60363.1; Type=Frameshift; Positions=288, 290, 291; Sequence=AAB60363.1; Type=Frameshift; Positions=288;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: TCF19
Diseases sorted by gene-association score: peeling skin syndrome (6)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D004052 Diethylnitrosamine
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • D015655 1-Methyl-4-phenylpyridinium
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C049584 2-amino-1-methyl-6-phenylimidazo(4,5-b)pyridine
  • C472791 3-(4'-hydroxy-3'-adamantylbiphenyl-4-yl)acrylic acid
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D000082 Acetaminophen
          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: 26.07 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 179.17 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 -249.60707-0.353 Picture PostScript Text
3' UTR -448.601498-0.299 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
IPR000253 - FHA_dom
IPR008984 - SMAD_FHA_domain
IPR019786 - Zinc_finger_PHD-type_CS
IPR011011 - Znf_FYVE_PHD
IPR001965 - Znf_PHD
IPR019787 - Znf_PHD-finger
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00498 - FHA domain

SCOP Domains:
49879 - SMAD/FHA domain
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on Q9Y242
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0008283 cell proliferation

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK056834 - Homo sapiens cDNA FLJ32272 fis, clone PROST1000564.
BX647174 - Homo sapiens mRNA; cDNA DKFZp686N23239 (from clone DKFZp686N23239).
BC044632 - Homo sapiens transcription factor 19, mRNA (cDNA clone MGC:52412 IMAGE:4841638), complete cds.
AK315258 - Homo sapiens cDNA, FLJ96263.
BC033086 - Homo sapiens transcription factor 19, mRNA (cDNA clone MGC:45652 IMAGE:3160434), complete cds.
JD478960 - Sequence 459984 from Patent EP1572962.
S53374 - SC1=putative trans-acting factor involved in cell cycle control [human, mRNA, 2481 nt].
BC002493 - Homo sapiens transcription factor 19, mRNA (cDNA clone MGC:2575 IMAGE:3051226), complete cds.
AB527740 - Synthetic construct DNA, clone: pF1KB7916, Homo sapiens TCF19 gene for transcription factor 19, without stop codon, in Flexi system.
DQ895842 - Synthetic construct Homo sapiens clone IMAGE:100010302; FLH188203.01L; RZPDo839H08149D transcription factor 19 (SC1) (TCF19) gene, encodes complete protein.
EU176376 - Synthetic construct Homo sapiens clone IMAGE:100006582; FLH263905.01X; RZPDo839F02246D transcription factor 19 (SC1) (TCF19) gene, encodes complete protein.
KJ897645 - Synthetic construct Homo sapiens clone ccsbBroadEn_07039 TCF19 gene, encodes complete protein.
CU677998 - Synthetic construct Homo sapiens gateway clone IMAGE:100019036 5' read TCF19 mRNA.
BT007247 - Homo sapiens transcription factor 19 (SC1) mRNA, complete cds.
JD132347 - Sequence 113371 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NCT8, B0UY11, ENST00000376257.1, ENST00000376257.2, ENST00000376257.3, ENST00000376257.4, ENST00000376257.5, ENST00000376257.6, ENST00000376257.7, NM_007109, Q0EFA8, Q13176, Q15967, Q5SQ89, Q5STD6, Q5STF5, Q9BUM2, Q9UBH7, Q9Y242, SC1, TCF19_HUMAN, uc318mvc.1, uc318mvc.2
UCSC ID: ENST00000376257.8_5
RefSeq Accession: NM_007109.3
Protein: Q9Y242 (aka TCF19_HUMAN or TF19_HUMAN)

-  Gene Model Information
  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.