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Aliases for TCF20 Gene

Aliases for TCF20 Gene

  • Transcription Factor 20 2 3 5
  • Stromelysin-1 Platelet-Derived Growth Factor-Responsive Element Binding Protein 2 3
  • Stromelysin-1 PDGF-Responsive Element-Binding Protein 3 4
  • SPRE-Binding Protein 3 4
  • Nuclear Factor SPBP 3 4
  • TCF-20 3 4
  • SPBP 3 4
  • Transcription Factor 20 (AR1) 2
  • Protein AR1 4
  • KIAA0292 4
  • AR1 3

External Ids for TCF20 Gene

Previous GeneCards Identifiers for TCF20 Gene

  • GC22M039158
  • GC22M040786
  • GC22M040880
  • GC22M042556
  • GC22M025521

Summaries for TCF20 Gene

Entrez Gene Summary for TCF20 Gene

  • This gene encodes a transcription factor that recognizes the platelet-derived growth factor-responsive element in the matrix metalloproteinase 3 promoter. The encoded protein is thought to be a transcriptional coactivator, enhancing the activity of transcription factors such as JUN and SP1. Mutations in this gene are associated with autism spectrum disorders. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2015]

GeneCards Summary for TCF20 Gene

TCF20 (Transcription Factor 20) is a Protein Coding gene. Diseases associated with TCF20 include Vertebrobasilar Insufficiency and Breast Sarcoma. Among its related pathways are ERK Signaling and Human Embryonic Stem Cell Pluripotency. GO annotations related to this gene include poly(A) RNA binding and transcription coactivator activity. An important paralog of this gene is RAI1.

UniProtKB/Swiss-Prot for TCF20 Gene

  • Transcriptional activator that binds to the regulatory region of MMP3 and thereby controls stromelysin expression. It stimulates the activity of various transcriptional activators such as JUN, SP1, PAX6 and ETS1, suggesting a function as a coactivator.

Gene Wiki entry for TCF20 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TCF20 Gene

Genomics for TCF20 Gene

Regulatory Elements for TCF20 Gene

Enhancers for TCF20 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH22F042364 0.9 FANTOM5 Ensembl ENCODE 20.3 -21.8 -21772 1.7 KLF17 FEZF1 GLIS2 ZNF263 ZEB2 SMARCA4 ZSCAN16 ZNF341 GLIS1 ZNF580 TCF20 LINC01315 WBP2NL NFAM1 GC22M042359
GH22F042176 1.3 FANTOM5 Ensembl ENCODE 20.1 +163.1 163093 8.2 HDGF TBP PKNOX1 CBX3 BMI1 YY1 ZNF121 GLIS2 GATA2 ZNF366 CYP2D6 TCF20 SMDT1 NFAM1 NDUFA6 NDUFA6-AS1 RNU6ATAC22P ENSG00000227370 MEI1 CENPM
GH22F042436 0.8 FANTOM5 ENCODE 15.6 -93.0 -92959 0.8 HDGF ZIC2 ZNF121 POLR2A SMARCA4 IKZF1 PRDM1 SPI1 NFAM1 TCF20 ARFGAP3 POLDIP3 NAGA GC22P042420
GH22F042443 1.2 FANTOM5 Ensembl ENCODE 15.5 -100.9 -100852 2.3 HDGF ATF1 PKNOX1 WRNIP1 SIN3A ARID4B ZNF2 YY1 ZNF121 GLIS2 TCF20 RRP7BP CYP2D6 CYP2D7 ENSG00000232710 RN7SKP80 NFAM1 SMDT1 POLDIP3 SEPT3
GH22F042188 1.2 Ensembl ENCODE 12.1 +154.5 154548 0.3 ZNF263 ZSCAN5A MAX KLF17 REST ZIC2 ZBTB48 ZNF701 GLIS1 HMBOX1 NAGA RPL5P34 TCF20 RN7SKP80 FAM109B PHF5A XRCC6 EP300-AS1 CYP2D7 ENSG00000232710
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around TCF20 on UCSC Golden Path with GeneCards custom track

Promoters for TCF20 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001843910 -284 1401 BCOR ZMYM3 BCL11B E2F1 ZFHX2 TCF7L2 EGR2 ZBTB10 ZNF263 L3MBTL2

Genomic Location for TCF20 Gene

Chromosome:
22
Start:
42,160,013 bp from pter
End:
42,343,616 bp from pter
Size:
183,604 bases
Orientation:
Minus strand

Genomic View for TCF20 Gene

Genes around TCF20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TCF20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TCF20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TCF20 Gene

Proteins for TCF20 Gene

  • Protein details for TCF20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UGU0-TCF20_HUMAN
    Recommended name:
    Transcription factor 20
    Protein Accession:
    Q9UGU0
    Secondary Accessions:
    • A9JX12
    • O14528
    • Q13078
    • Q4V353
    • Q9H4M0

    Protein attributes for TCF20 Gene

    Size:
    1960 amino acids
    Molecular mass:
    211771 Da
    Quaternary structure:
    • Homodimer (Probable). Interacts with RNF4 and JUN (By similarity).
    SequenceCaution:
    • Sequence=AAC36392.1; Type=Frameshift; Positions=1932; Evidence={ECO:0000305}; Sequence=CAB42440.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for TCF20 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TCF20 Gene

Post-translational modifications for TCF20 Gene

  • Ubiquitination at Lys 844, Lys 1086, and Lys 1267
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TCF20 Gene

Domains & Families for TCF20 Gene

Protein Domains for TCF20 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TCF20 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9UGU0

UniProtKB/Swiss-Prot:

TCF20_HUMAN :
  • The atypical PHD domain functions as a negative modulator of cofactor binding.
  • Contains 1 C2HC pre-PHD-type zinc finger.
Domain:
  • The atypical PHD domain functions as a negative modulator of cofactor binding.
  • Contains 1 A.T hook DNA-binding domain.
Similarity:
  • Contains 1 C2HC pre-PHD-type zinc finger.
  • Contains 1 PHD-type zinc finger.
genes like me logo Genes that share domains with TCF20: view

No data available for Gene Families for TCF20 Gene

Function for TCF20 Gene

Molecular function for TCF20 Gene

GENATLAS Biochemistry:
transcription factor 20 (TCF20),highly homolog to Spbp,a murine activator of expression of stromelysin 1
UniProtKB/Swiss-Prot Function:
Transcriptional activator that binds to the regulatory region of MMP3 and thereby controls stromelysin expression. It stimulates the activity of various transcriptional activators such as JUN, SP1, PAX6 and ETS1, suggesting a function as a coactivator.

Gene Ontology (GO) - Molecular Function for TCF20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding NAS 10995766
GO:0003700 transcription factor activity, sequence-specific DNA binding IBA --
GO:0003713 transcription coactivator activity NAS 10995766
GO:0008270 zinc ion binding IEA --
GO:0044212 transcription regulatory region DNA binding IBA --
genes like me logo Genes that share ontologies with TCF20: view
genes like me logo Genes that share phenotypes with TCF20: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TCF20 Gene

Localization for TCF20 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TCF20 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TCF20 Gene COMPARTMENTS Subcellular localization image for TCF20 gene
Compartment Confidence
nucleus 5
mitochondrion 2

Gene Ontology (GO) - Cellular Components for TCF20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus NAS 10995766
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with TCF20: view

Pathways & Interactions for TCF20 Gene

genes like me logo Genes that share pathways with TCF20: view

Pathways by source for TCF20 Gene

Gene Ontology (GO) - Biological Process for TCF20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated NAS 10995766
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IBA --
genes like me logo Genes that share ontologies with TCF20: view

No data available for SIGNOR curated interactions for TCF20 Gene

Transcripts for TCF20 Gene

Unigene Clusters for TCF20 Gene

Transcription factor 20 (AR1):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TCF20 Gene

No ASD Table

Relevant External Links for TCF20 Gene

GeneLoc Exon Structure for
TCF20
ECgene alternative splicing isoforms for
TCF20

Expression for TCF20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TCF20 Gene

Protein differential expression in normal tissues from HIPED for TCF20 Gene

This gene is overexpressed in Heart (21.8), Peripheral blood mononuclear cells (17.7), CD8 Tcells (8.5), and Plasma (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TCF20 Gene



Protein tissue co-expression partners for TCF20 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TCF20 Gene:

TCF20

SOURCE GeneReport for Unigene cluster for TCF20 Gene:

Hs.475018

mRNA Expression by UniProt/SwissProt for TCF20 Gene:

Q9UGU0-TCF20_HUMAN
Tissue specificity: Expressed in most tissues, except in ovary and prostate. Isoform 1 is exclusively expressed in brain, heart and testis, and this form predominates in liver and kidney. Isoform 2 predominates in lung.
genes like me logo Genes that share expression patterns with TCF20: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for TCF20 Gene

Orthologs for TCF20 Gene

This gene was present in the common ancestor of animals.

Orthologs for TCF20 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TCF20 34 35
  • 99.37 (n)
dog
(Canis familiaris)
Mammalia TCF20 34 35
  • 89.75 (n)
mouse
(Mus musculus)
Mammalia Tcf20 34 16 35
  • 88.68 (n)
Zfp957 35
  • 54 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Tcf20 34
  • 88.6 (n)
cow
(Bos Taurus)
Mammalia TCF20 34 35
  • 87.69 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TCF20 35
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TCF20 35
  • 83 (a)
OneToOne
chicken
(Gallus gallus)
Aves TCF20 34 35
  • 75.79 (n)
lizard
(Anolis carolinensis)
Reptilia TCF20 35
  • 74 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tcf20 34
  • 60.91 (n)
Str.17635 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.16860 34
zebrafish
(Danio rerio)
Actinopterygii tcf20 35
  • 22 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG5098 35
  • 16 (a)
OneToMany
Species where no ortholog for TCF20 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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 TCF20 Gene

ENSEMBL:
Gene Tree for TCF20 (if available)
TreeFam:
Gene Tree for TCF20 (if available)

Paralogs for TCF20 Gene

Paralogs for TCF20 Gene

genes like me logo Genes that share paralogs with TCF20: view

Variants for TCF20 Gene

Sequence variations from dbSNP and Humsavar for TCF20 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs869312678 Pathogenic 42,209,920(-) GACTG(-/TG)GTGGA reference, frameshift-variant
rs1001586 -- 42,274,287(-) GTATC(A/C)TTGTG intron-variant, nc-transcript-variant
rs1001587 -- 42,274,105(-) CAGGC(A/G)GCGCC intron-variant, nc-transcript-variant
rs1001588 -- 42,273,636(-) ttttt(A/T)actgt intron-variant
rs10428044 -- 42,219,353(+) cctgt(C/T)tcaaa intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TCF20 Gene

Variant ID Type Subtype PubMed ID
nsv3643 CNV insertion 18451855
nsv474702 CNV novel sequence insertion 20440878
nsv834210 CNV loss 17160897
nsv834211 CNV loss 17160897

Variation tolerance for TCF20 Gene

Residual Variation Intolerance Score: 0.349% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.94; 83.94% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TCF20 Gene

Human Gene Mutation Database (HGMD)
TCF20
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TCF20

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TCF20 Gene

Disorders for TCF20 Gene

MalaCards: The human disease database

(3) MalaCards diseases for TCF20 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
vertebrobasilar insufficiency
  • vertebro-basilar insufficiency
breast sarcoma
  • sarcoma of breast
autism spectrum disorder
  • pervasive development disorder
- elite association - COSMIC cancer census association via MalaCards
Search TCF20 in MalaCards View complete list of genes associated with diseases

Relevant External Links for TCF20

Genetic Association Database (GAD)
TCF20
Human Genome Epidemiology (HuGE) Navigator
TCF20
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TCF20
genes like me logo Genes that share disorders with TCF20: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TCF20 Gene

Publications for TCF20 Gene

  1. The nuclear factor SPBP contains different functional domains and stimulates the activity of various transcriptional activators. (PMID: 10995766) Rekdal C. … Johansen T. (J. Biol. Chem. 2000) 2 3 4 22 64
  2. Assignment of AR1, transcription factor 20 (TCF20), to human chromosome 22q13.3 with somatic cell hybrids and in situ hybridization. (PMID: 9730594) Rajadhyaksha A. … Bina M. (Cytogenet. Cell Genet. 1998) 2 3 4 22 64
  3. Type 2 diabetes risk alleles near ADCY5, CDKAL1 and HHEX-IDE are associated with reduced birthweight. (PMID: 20490451) Andersson E.A. … Pedersen O. (Diabetologia 2010) 3 46 64
  4. Implication of genetic variants near SLC30A8, HHEX, CDKAL1, CDKN2A/B, IGF2BP2, FTO, TCF2, KCNQ1, and WFS1 in type 2 diabetes in a Chinese population. (PMID: 20509872) Han X. … Ji L. (BMC Med. Genet. 2010) 3 46 64
  5. Prostate cancer risk-associated variants reported from genome-wide association studies: meta-analysis and their contribution to genetic Variation. (PMID: 20564319) Kim S.T. … Sun J. (Prostate 2010) 3 46 64

Products for TCF20 Gene

Sources for TCF20 Gene

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