TCF19 Gene (Protein Coding)

Transcription Factor 19

GC06P051944
GIFtS:
37
This gene encodes a protein that contains a PHD-type zinc finger domain and likely functions as a transcription factor. The encoded protein plays a role proliferation and apoptosis of pancreatic beta cells. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2016] See more...

Aliases for TCF19 Gene

Aliases for TCF19 Gene

  • Transcription Factor 19 2 3 4 5
  • SC1 2 3 4
  • Transcription Factor SC1 3 4
  • TCF-19 3 4
  • TCF19 5

External Ids for TCF19 Gene

Previous GeneCards Identifiers for TCF19 Gene

  • GC06P031182
  • GC06P030897
  • GC06P031232
  • GC06P031234
  • GC06P031126
  • GC06P031159
  • GC06P032298
  • GC06P032487
  • GC06P032592
  • GC06P033377
  • GC06P031162
  • GC06P031295
  • GC06P031297
  • GC06P031434
  • GC06P032079
  • GC06P047294
  • GC06P049340

Summaries for TCF19 Gene

Entrez Gene Summary for TCF19 Gene

  • This gene encodes a protein that contains a PHD-type zinc finger domain and likely functions as a transcription factor. The encoded protein plays a role proliferation and apoptosis of pancreatic beta cells. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2016]

GeneCards Summary for TCF19 Gene

TCF19 (Transcription Factor 19) is a Protein Coding gene. Diseases associated with TCF19 include Psoriasis 8 and Psoriasis 7. Among its related pathways are TGF-Beta Pathway and WNT Signaling. Gene Ontology (GO) annotations related to this gene include DNA-binding transcription factor activity.

UniProtKB/Swiss-Prot Summary for TCF19 Gene

  • Potential trans-activating factor that could play an important role in the transcription of genes required for the later stages of cell cycle progression.

Gene Wiki entry for TCF19 Gene

Additional gene information for TCF19 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TCF19 Gene

Genomics for TCF19 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for TCF19 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TCF19 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TCF19

Top Transcription factor binding sites by QIAGEN in the TCF19 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • MyoD
  • STAT3

Genomic Locations for TCF19 Gene

Latest Assembly
chr6:31,158,547-31,167,159
(GRCh38/hg38)
Size:
8,613 bases
Orientation:
Plus strand

Previous Assembly
chr6:31,126,366-31,131,992
(GRCh37/hg19 by Entrez Gene)
Size:
5,627 bases
Orientation:
Plus strand

chr6:31,126,319-31,134,936
(GRCh37/hg19 by Ensembl)
Size:
8,618 bases
Orientation:
Plus strand

Alternative Locations (GRCh38/hg38)

  • chr6(ALT_REF_LOCI_2):2,641,017-2,646,639 (+)
  • chr6(ALT_REF_LOCI_3):2,417,909-2,423,531 (+)
  • chr6(ALT_REF_LOCI_4):2,469,124-2,474,716 (+)
  • chr6(ALT_REF_LOCI_5):2,502,738-2,508,330 (+)
  • chr6(ALT_REF_LOCI_6):2,416,621-2,422,248 (+)
  • chr6(ALT_REF_LOCI_7):2,462,004-2,467,631 (+)

Genomic View for TCF19 Gene

Genes around TCF19 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TCF19 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TCF19 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

Proteins for TCF19 Gene

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  3. Assay products for research

  • Protein details for TCF19 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y242-TCF19_HUMAN
    Recommended name:
    Transcription factor 19
    Protein Accession:
    Q9Y242
    Secondary Accessions:
    • A6NCT8
    • B0UY11
    • Q0EFA8
    • Q13176
    • Q15967
    • Q5SQ89
    • Q5STD6
    • Q5STF5
    • Q9BUM2
    • Q9UBH7

    Protein attributes for TCF19 Gene

    Size:
    345 amino acids
    Molecular mass:
    37184 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAB60363.1; Type=Frameshift; Evidence={ECO:0000305};

neXtProt entry for TCF19 Gene

Post-translational modifications for TCF19 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TCF19 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibodies for research

  • Abcam antibodies for TCF19
  • Boster Bio Antibodies for TCF19

No data available for DME Specific Peptides for TCF19 Gene

Domains & Families for TCF19 Gene

Gene Families for TCF19 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for TCF19 Gene

InterPro:
Blocks:
  • Zn-finger-like, PHD finger
  • Forkhead-associated (FHA)

Suggested Antigen Peptide Sequences for TCF19 Gene

GenScript: Design optimal peptide antigens:
  • Transcription factor SC1 (TCF19_HUMAN)
genes like me logo Genes that share domains with TCF19: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for TCF19 Gene

Function for TCF19 Gene

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  6. Cell Lines for research

Molecular function for TCF19 Gene

UniProtKB/Swiss-Prot 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.
GENATLAS Biochemistry:
transcription factor 19,SC1,late growth-regulated gene

Phenotypes From GWAS Catalog for TCF19 Gene

Gene Ontology (GO) - Molecular Function for TCF19 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003700 DNA-binding transcription factor activity IEA --
GO:0005515 protein binding IEA,IPI 21516116
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TCF19: view
genes like me logo Genes that share phenotypes with TCF19: view

Animal Models for TCF19 Gene

MGI Knock Outs for TCF19:
  • Tcf19 Tcf19<tm1b(EUCOMM)Hmgu>

Animal Models for research

miRNA for TCF19 Gene

miRTarBase miRNAs that target TCF19

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TCF19

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TCF19 Gene

Localization for TCF19 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TCF19 Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TCF19 gene
Compartment Confidence
nucleus 4
extracellular 2
cytosol 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TCF19 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
genes like me logo Genes that share ontologies with TCF19: view

Pathways & Interactions for TCF19 Gene

PathCards logo

SuperPathways for TCF19 Gene

SuperPathway Contained pathways
1 Human Embryonic Stem Cell Pluripotency
Factors Promoting Cardiogenesis in Vertebrates
.50
Human Embryonic Stem Cell Pluripotency
.50
2 ERK Signaling
MAPK Signaling
.58
ILK Signaling
.49
3 PAK Pathway
Epithelial Adherens Junctions
.36
4 TGF-Beta Pathway
JNK Pathway
.51
5 WNT Signaling
WNT Signaling
-
genes like me logo Genes that share pathways with TCF19: view

Pathways by source for TCF19 Gene

7 Qiagen pathways for TCF19 Gene
  • Epithelial Adherens Junctions
  • Factors Promoting Cardiogenesis in Vertebrates
  • Human Embryonic Stem Cell Pluripotency
  • ILK Signaling
  • JNK Pathway

Gene Ontology (GO) - Biological Process for TCF19 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0010468 regulation of gene expression IEA,IBA 21873635
genes like me logo Genes that share ontologies with TCF19: view

No data available for SIGNOR curated interactions for TCF19 Gene

Drugs & Compounds for TCF19 Gene

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  1. Drug products for research

(1) Drugs for TCF19 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Nevirapine Approved Pharma 233
genes like me logo Genes that share compounds with TCF19: view

Transcripts for TCF19 Gene

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mRNA/cDNA for TCF19 Gene

3 REFSEQ mRNAs :
14 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TCF19

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for TCF19 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b · 7c
SP1: -
SP2: - -
SP3: -
SP4: - - -
SP5:
SP6: -

Relevant External Links for TCF19 Gene

GeneLoc Exon Structure for
TCF19

Expression for TCF19 Gene

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  1. Primer products for research
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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TCF19 Gene

mRNA expression in normal human tissues for TCF19 Gene
mRNA expression by GTEx for TCF19 GenemRNA expression by BioGPS for TCF19 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TCF19

SOURCE GeneReport for Unigene cluster for TCF19 Gene:

Hs.584807

Evidence on tissue expression from TISSUES for TCF19 Gene

  • Skin(4.4)
  • Intestine(4.3)
  • Blood(4.3)
  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with TCF19: view

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TCF19 Gene

Orthologs for TCF19 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TCF19 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia TCF19 29 30
  • 98.94 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia TCF19 29 30
  • 86.63 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia TCF19 29 30
  • 85.27 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Tcf19 29
  • 82.58 (n)
Mouse
(Mus musculus)
 Mammalia Tcf19 29 16 30
  • 81.3 (n)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia TCF19 30
  • 72 (a)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia TCF19 30
  • 54 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia tcf19 29
  • 51.53 (n)
Zebrafish
(Danio rerio)
 Actinopterygii tcf19l 29 30
  • 54.36 (n)
 OneToOne
Species where no ortholog for TCF19 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for TCF19 Gene

ENSEMBL:
Gene Tree for TCF19 (if available)
TreeFam:
Gene Tree for TCF19 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TCF19: view image
Alliance of Genome Resources:
Additional Orthologs for TCF19

Paralogs for TCF19 Gene

Pseudogenes.org Pseudogenes for TCF19 Gene

genes like me logo Genes that share paralogs with TCF19: view

No data available for Paralogs for TCF19 Gene

Variants for TCF19 Gene

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  1. SNP Genotyping and Copy Number Assays for research

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TCF19 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
rs188298136 Benign: not provided 31,161,765(+) G/A
NM_007109.3(TCF19):c.557G>A (p.Arg186Gln) 		MISSENSE
rs2073721 -- p.Met211Val
rs2073724 -- p.Pro241Leu
rs7750641 -- p.Pro109Ser

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TCF19 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for TCF19 Gene

Variant ID Type Subtype PubMed ID
dgv1174e214 CNV gain 21293372
esv2731791 CNV deletion 23290073
esv2759414 CNV gain+loss 17122850
esv3411275 CNV duplication 20981092
esv3608531 CNV loss 21293372
esv3608532 CNV gain 21293372
nsv1074389 CNV deletion 25765185
nsv1122126 CNV deletion 24896259
nsv1144137 CNV deletion 24896259
nsv428140 CNV gain+loss 18775914
nsv524061 CNV loss 19592680
nsv525933 CNV loss 19592680
nsv601264 CNV loss 21841781
nsv601481 CNV loss 21841781
nsv970105 CNV duplication 23825009

Variation tolerance for TCF19 Gene

Residual Variation Intolerance Score: 55% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.57; 65.09% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TCF19 Gene

Human Gene Mutation Database (HGMD)
TCF19
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TCF19
Leiden Open Variation Database (LOVD)
TCF19

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TCF19 Gene

Disorders for TCF19 Gene

MalaCards: The human disease database

(3) MalaCards diseases for TCF19 Gene - From: COP

Disorder Aliases PubMed IDs
psoriasis 8
  • psoriasis 8, susceptibility to
psoriasis 7
  • psoriasis 7, susceptibility to
peeling skin syndrome
  • skin peeling syndrome
- elite association - COSMIC cancer census association via MalaCards
Search TCF19 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TCF19

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with TCF19: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TCF19 Gene

Publications for TCF19 Gene

  1. Genetic polymorphisms in the cell growth regulated gene, SC1 telomeric of the HLA-C gene and lack of association of psoriasis vulgaris. (PMID: 10777095) Teraoka Y … Inoko H (Tissue antigens 2000) 3 4 22 40
  2. A new growth-regulated complementary DNA with the sequence of a putative trans-activating factor. (PMID: 1868030) Ku DH … Baserga R (Cell growth & differentiation : the molecular biology journal of the American Association for Cancer Research 1991) 2 3 4 22
  3. Examination of genetic polymorphisms in newborns for signatures of sex-specific prenatal selection. (PMID: 20587610) Ucisik-Akkaya E … Dorak MT (Molecular human reproduction 2010) 3 40
  4. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PMID: 19851445) Barcellos LF … Criswell LA (PLoS genetics 2009) 3 40
  5. Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity. (PMID: 16702430) Shiina T … Bahram S (Genetics 2006) 3 4

ExternalLinks

View latest publications for TCF19 gene in Mastermind

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Sources for TCF19 Gene