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Aliases for TCF4 Gene

Aliases for TCF4 Gene

  • Transcription Factor 4 2 3
  • ITF2 3 4 6
  • SEF2 3 4 6
  • Class B Basic Helix-Loop-Helix Protein 19 3 4
  • Immunoglobulin Transcription Factor 2 3 4
  • SL3-3 Enhancer Factor 2 3 4
  • BHLHb19 3 4
  • ITF-2 3 4
  • SEF-2 3 4
  • TCF-4 3 4
  • PTHS 3 6
  • SEF2-1A 3
  • SEF2-1B 3
  • SEF2-1D 3
  • SEF2-1 3
  • E2-2 3

External Ids for TCF4 Gene

Previous GeneCards Identifiers for TCF4 Gene

  • GC18M052983
  • GC18M052797
  • GC18M052679
  • GC18M051043
  • GC18M051045
  • GC18M052889
  • GC18M049599

Summaries for TCF4 Gene

Entrez Gene Summary for TCF4 Gene

  • This gene encodes transcription factor 4, a basic helix-loop-helix transcription factor. The encoded protein recognizes an Ephrussi-box ('E-box') binding site ('CANNTG') - a motif first identified in immunoglobulin enhancers. This gene is broadly expressed, and may play an important role in nervous system development. Defects in this gene are a cause of Pitt-Hopkins syndrome. Multiple alternatively spliced transcript variants that encode different proteins have been described. [provided by RefSeq, Aug 2011]

GeneCards Summary for TCF4 Gene

TCF4 (Transcription Factor 4) is a Protein Coding gene. Diseases associated with TCF4 include pitt-hopkins syndrome and cholangitis, primary sclerosing. Among its related pathways are L1CAM interactions and ERK Signaling. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and protein C-terminus binding. An important paralog of this gene is TCF3.

UniProtKB/Swiss-Prot for TCF4 Gene

  • Transcription factor that binds to the immunoglobulin enchancer Mu-E5/KE5-motif. Involved in the initiation of neuronal differentiation. Activates transcription by binding to the E box (5-CANNTG-3). Binds to the E-box present in the somatostatin receptor 2 initiator element (SSTR2-INR) to activate transcription (By similarity). Preferentially binds to either 5-ACANNTGT-3 or 5-CCANNTGG-3.

Gene Wiki entry for TCF4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TCF4 Gene

Genomics for TCF4 Gene

Regulatory Elements for TCF4 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for TCF4 Gene

Start:
55,222,331 bp from pter
End:
55,664,787 bp from pter
Size:
442,457 bases
Orientation:
Minus strand

Genomic View for TCF4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TCF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TCF4 Gene

Proteins for TCF4 Gene

  • Protein details for TCF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P15884-ITF2_HUMAN
    Recommended name:
    Transcription factor 4
    Protein Accession:
    P15884
    Secondary Accessions:
    • B3KT62
    • B3KUC0
    • B4DT37
    • B4DUG3
    • B7Z5M6
    • B7Z6Y1
    • G0LNT9
    • G0LNU0
    • G0LNU1
    • G0LNU2
    • G0LNU4
    • G0LNU5
    • G0LNU8
    • G0LNU9
    • G0LNV0
    • G0LNV1
    • G0LNV2
    • H3BPQ1
    • Q08AP2
    • Q08AP3
    • Q15439
    • Q15440
    • Q15441

    Protein attributes for TCF4 Gene

    Size:
    667 amino acids
    Molecular mass:
    71308 Da
    Quaternary structure:
    • Efficient DNA binding requires dimerization with another bHLH protein. Forms homo- or heterooligomers with myogenin. Interacts with HIVEP2. Interacts with NEUROD2 (By similarity). Interacts with AGBL1.
    SequenceCaution:
    • Sequence=AAA60310.1; Type=Miscellaneous discrepancy; Note=Incomplete and probable erroneous sequence.; Evidence={ECO:0000305}; Sequence=AAA60312.1; Type=Miscellaneous discrepancy; Note=Incomplete and probable erroneous sequence.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TCF4 Gene

neXtProt entry for TCF4 Gene

Proteomics data for TCF4 Gene at MOPED

Post-translational modifications for TCF4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TCF4 Gene

Domains for TCF4 Gene

Gene Families for TCF4 Gene

HGNC:
  • bHLH :Basic helix-loop-helix proteins

Protein Domains for TCF4 Gene

Graphical View of Domain Structure for InterPro Entry

P15884

UniProtKB/Swiss-Prot:

ITF2_HUMAN :
  • P15884
Domain:
  • the 9aaTAD motif is a transactivation domain present in a large number of yeast and animal transcription factors.
  • Contains 1 bHLH (basic helix-loop-helix) domain.
genes like me logo Genes that share domains with TCF4: view

Function for TCF4 Gene

Molecular function for TCF4 Gene

GENATLAS Biochemistry:
transcription factor 4,with several alternatively spliced isoforms
UniProtKB/Swiss-Prot Function:
Transcription factor that binds to the immunoglobulin enchancer Mu-E5/KE5-motif. Involved in the initiation of neuronal differentiation. Activates transcription by binding to the E box (5-CANNTG-3). Binds to the E-box present in the somatostatin receptor 2 initiator element (SSTR2-INR) to activate transcription (By similarity). Preferentially binds to either 5-ACANNTGT-3 or 5-CCANNTGG-3.

Gene Ontology (GO) - Molecular Function for TCF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding ISS 8978694
GO:0001011 sequence-specific DNA binding RNA polymerase recruiting transcription factor activity ISS 8978694
GO:0001077 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription ISS 8978694
GO:0001087 TFIIB-class binding transcription factor activity ISS 8978694
GO:0001093 TFIIB-class transcription factor binding ISS 8978694
genes like me logo Genes that share ontologies with TCF4: view
genes like me logo Genes that share phenotypes with TCF4: view

Animal Models for TCF4 Gene

MGI Knock Outs for TCF4:

Animal Model Products

miRNA for TCF4 Gene

Transcription Factor Targeting for TCF4 Gene

Selected GeneGlobe predicted Target genes for TCF4

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TCF4

Clone Products

  • Addgene plasmids for TCF4

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) and HOMER Transcription for TCF4 Gene

Localization for TCF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TCF4 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TCF4 Gene COMPARTMENTS Subcellular localization image for TCF4 gene
Compartment Confidence
nucleus 5
cytosol 2
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for TCF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 1681116
GO:0005667 transcription factor complex ISS 8978694
genes like me logo Genes that share ontologies with TCF4: view

Pathways for TCF4 Gene

genes like me logo Genes that share pathways with TCF4: view

PCR Array Products

Gene Ontology (GO) - Biological Process for TCF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter --
GO:0006352 DNA-templated transcription, initiation ISS 8978694
GO:0006355 regulation of transcription, DNA-templated --
GO:0006367 transcription initiation from RNA polymerase II promoter ISS 8978694
GO:0045666 positive regulation of neuron differentiation ISS --
genes like me logo Genes that share ontologies with TCF4: view

Compounds for TCF4 Gene

(2) Novoseek inferred chemical compound relationships for TCF4 Gene

Compound -log(P) Hits PubMed IDs
mononucleotide 48.4 2
glycogen 32 2
genes like me logo Genes that share compounds with TCF4: view

Transcripts for TCF4 Gene

Unigene Clusters for TCF4 Gene

Transcription factor 4:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TCF4

Clone Products

  • Addgene plasmids for TCF4

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TCF4 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17a · 17b · 17c ^ 18 ^ 19 ^ 20 ^ 21a · 21b ^ 22a ·
SP1: - - - - - - -
SP2: - - - - - - -
SP3: - - - - - -
SP4: - - - - -
SP5: -
SP6: -
SP7: - - -
SP8: - -
SP9: -
SP10:
SP11: - - -
SP12: -
SP13:

ExUns: 22b ^ 23 ^ 24a · 24b · 24c ^ 25a · 25b ^ 26 ^ 27a · 27b
SP1: - -
SP2: -
SP3: - -
SP4: -
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:

Relevant External Links for TCF4 Gene

GeneLoc Exon Structure for
TCF4
ECgene alternative splicing isoforms for
TCF4

Expression for TCF4 Gene

mRNA expression in normal human tissues for TCF4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues for TCF4 Gene

This gene is overexpressed in NK cells (59.0) and Blymphocyte (6.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for TCF4 Gene

SOURCE GeneReport for Unigene cluster for TCF4 Gene Hs.605153

mRNA Expression by UniProt/SwissProt for TCF4 Gene

P15884-ITF2_HUMAN
Tissue specificity: Expressed in adult heart, brain, placenta, skeletal muscle and to a lesser extent in the lung. In developing embryonic tissues, expression mostly occurs in the brain
genes like me logo Genes that share expressions with TCF4: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and Expression partners for TCF4 Gene

Orthologs for TCF4 Gene

This gene was present in the common ancestor of animals.

Orthologs for TCF4 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TCF4 35
  • 91.96 (n)
  • 97.94 (a)
TCF7L2 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TCF4 35
  • 95.48 (n)
  • 99.07 (a)
TCF4 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tcf4 35
  • 92.64 (n)
  • 98.2 (a)
Tcf4 16
Tcf4 36
  • 98 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tcf4 35
  • 91.62 (n)
  • 97.44 (a)
oppossum
(Monodelphis domestica)
Mammalia TCF4 36
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TCF4 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TCF4 36
  • 99 (a)
OneToOne
chicken
(Gallus gallus)
Aves TCF4 36
  • 81 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TCF4 36
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tcf4 35
  • 80.34 (n)
  • 89.01 (a)
zebrafish
(Danio rerio)
Actinopterygii CABZ01109624.1 36
  • 78 (a)
OneToMany
tcf4 36
  • 77 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta da 37
  • 78 (a)
da 36
  • 24 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea hlh-2 36
  • 24 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 26 (a)
OneToMany
Species with no ortholog for TCF4:
  • A. gosspyii yeast (Ashbya 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)
  • 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 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)

Evolution for TCF4 Gene

ENSEMBL:
Gene Tree for TCF4 (if available)
TreeFam:
Gene Tree for TCF4 (if available)

Paralogs for TCF4 Gene

Paralogs for TCF4 Gene

genes like me logo Genes that share paralogs with TCF4: view

Variants for TCF4 Gene

Sequence variations from dbSNP and Humsavar for TCF4 Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type MAF
rs8766 Benign 55,228,300(-) TCCTC(A/G)GAGCC reference, synonymous-codon
rs11429 -- 55,224,298(-) TCTTT(G/T)TGCAG utr-variant-3-prime
rs581653 -- 55,548,508(+) CTAAA(A/T)CTACT intron-variant
rs582584 -- 55,597,946(-) TAGAC(A/C)AACTG intron-variant
rs583113 -- 55,525,291(+) ACCTT(G/T)GATTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TCF4 Gene

Variant ID Type Subtype PubMed ID
nsv2315 CNV Loss 18451855
esv273068 CNV Insertion 20981092
nsv438291 CNV Loss 16468122
esv274560 CNV Insertion 20981092
esv271560 CNV Insertion 20981092
esv2659569 CNV Deletion 23128226
esv2635967 CNV Deletion 19546169
esv2487089 CNV Deletion 19546169
dgv496e201 CNV Deletion 23290073
esv2717133 CNV Deletion 23290073
nsv828246 CNV Gain 20364138
nsv131347 CNV Insertion 16902084

Relevant External Links for TCF4 Gene

HapMap Linkage Disequilibrium report
TCF4
Human Gene Mutation Database (HGMD)
TCF4
Locus Specific Mutation Databases (LSDB)
TCF4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TCF4 Gene

Disorders for TCF4 Gene

(1) OMIM Diseases for TCF4 Gene (602272)

UniProtKB/Swiss-Prot

ITF2_HUMAN
  • Pitt-Hopkins syndrome (PTHS) [MIM:610954]: A syndrome characterized by mental retardation, wide mouth and distinctive facial features, and intermittent hyperventilation followed by apnea. Features include intellectual disability with severe speech impairment, normal growth parameters at birth, postnatal microcephaly, breathing anomalies, severe motor developmental delay, motor incoordination, ocular anomalies, constipation, seizures, typical behavior and subtle brain abnormalities. {ECO:0000269 PubMed:17436254, ECO:0000269 PubMed:17436255, ECO:0000269 PubMed:18728071, ECO:0000269 PubMed:19235238, ECO:0000269 PubMed:20184619, ECO:0000269 PubMed:22045651}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(1) University of Copenhagen DISEASES for TCF4 Gene

(14) Novoseek inferred disease relationships for TCF4 Gene

Disease -log(P) Hits PubMed IDs
familial adenomatous polyposis 70.8 3
colon cancer 52.9 2
endometrial carcinoma 43 4
colorectal cancer 40.8 2
colorectal tumors 28.8 1

Relevant External Links for TCF4

Genetic Association Database (GAD)
TCF4
Human Genome Epidemiology (HuGE) Navigator
TCF4
genes like me logo Genes that share disorders with TCF4: view

No data available for Genatlas for TCF4 Gene

Publications for TCF4 Gene

  1. Helix-loop-helix transcriptional activators bind to a sequence in glucocorticoid response elements of retrovirus enhancers. (PMID: 1681116) Corneliussen B. … Grundstroem T. (J. Virol. 1991) 3 4 23
  2. Common variants conferring risk of schizophrenia. (PMID: 19571808) Stefansson H. … Collier D.A. (Nature 2009) 3 23 48
  3. Sequence of the cDNA encoding ITF-2, a positive-acting transcription factor. (PMID: 2308860) Henthorn P. … Kadesch T. (Nucleic Acids Res. 1990) 2 3 4
  4. A novel, heritable, expanding CTG repeat in an intron of the SEF2-1 gene on chromosome 18q21.1. (PMID: 9302263) Breschel T.S. … Ross C.A. (Hum. Mol. Genet. 1997) 2 3 4
  5. Transcription factor E2-2 is an essential and specific regulator of plasmacytoid dendritic cell development. (PMID: 18854153) Cisse B. … Reizis B. (Cell 2008) 3 23

Products for TCF4 Gene

  • Addgene plasmids for TCF4

Sources for TCF4 Gene

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