TCF12 (transcription factor 12)

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TCF12 (transcription factor 12)

Written	2003-07	Goran Stenman
		Lundberg Laboratory for Cancer Research, Department of Pathology, Goteborg University, Sahlgrenska University Hospital, SE-413 45 Goteborg, Sweden

(Note : for Links provided by Atlas : click)

Identity

Alias_symbol (synonym)	HEB
	HTF4
	HsT17266
	bHLHb20
	p64
Other alias
HGNC (Hugo)	TCF12
LocusID (NCBI)	6938
Atlas_Id	406
Location	15q21.3 [Link to chromosome band 15q21]
Location_base_pair	Starts at 57219457 and ends at 57288516 bp from pter ( according to hg19-Feb_2009) [Mapping TCF12.png]

Fusion genes
(updated 2017)

Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

CGNL1 (15q21.3) / TCF12 (15q21.3)	FMNL2 (2q23.3) / TCF12 (15q21.3)	KMT2A (11q23.3) / TCF12 (15q21.3)
MAP3K5 (6q23.3) / TCF12 (15q21.3)	MIR548H3 (6q16.1) / TCF12 (15q21.3)	NR4A3 (9q22.33) / TCF12 (15q21.3)
OSCP1 (1p34.3) / TCF12 (15q21.3)	RNF111 (15q22.1) / TCF12 (15q21.3)	RREB1 (6p24.3) / TCF12 (15q21.3)
RUNX1 (21q22.12) / TCF12 (15q21.3)	TCF12 (15q21.3) / CMAS (12p12.1)	TCF12 (15q21.3) / DDX39B (6p21.33)
TCF12 (15q21.3) / FTL (19q13.33)	TCF12 (15q21.3) / KMT2A (11q23.3)	TCF12 (15q21.3) / MGST2 (4q31.1)
TCF12 (15q21.3) / NPAS1 (19q13.32)	TCF12 (15q21.3) / NR4A3 (9q22.33)	TCF12 (15q21.3) / NR4A3 (9q31.1)
TCF12 (15q21.3) / OSCP1 (1p34.3)	TCF12 (15q21.3) / TCF12 (15q21.3)	TCF12 (15q21.3) / TEX9 (15q21.3)
TCF12 (15q21.3) / TMEM255B (13q34)

DNA/RNA

Description	spans 370 kb; 21 exons.
Transcription	two alternatively spliced transcripts of 4745 bp and 4077 bp.

Protein

Description	682 aa, 73 kDa; serine rich N-terminus containing a potential leuzine zipper domain; C-terminus containing a bHLH-domain as well as a class A-specific domain.
Expression	ubiquitous
Localisation	nuclear
Function	basic helix-loop-helix (bHLH) transcription factor belonging to the class A family; acts as a general negative regulator of cell proliferation; binds specifically to oligomers of E-box motifs; forms heterodimers with other bHLH proteins of both class A and class B, e.g. E2A, TAL1, myogenin and MyoD; implicated in myogenesis, hematopoiesis and neurogenesis.
Homology	TCF3 and TCF4

Implicated in

Note

Entity	Extraskeletal myxoid chondrosarcoma with t(9;15)(q22;q21).
Disease	rare type of sarcoma (2.3% of all soft tissue sarcomas) characteristically involving the deep, soft tissues of the extremities; morphological resemblance to embryonic cartilage.
Hybrid/Mutated Gene	TCF12-TEC
Abnormal Protein	N-terminal domain of TCF12 fused to the entire TEC protein; the translocation separates the N-terminal of TCF12 from the bHLH domain as well as from a potential leucine zipper domain; the N-terminal of TCF12 shows no sequence homology to the N-terminals of EWSR1 or TAF2N.

Bibliography

Muscle differentiation: more complexity to the network of myogenic regulators.

Arnold HH, Winter B

Current opinion in genetics & development. 1998 ; 8 (5) : 539-544.

PMID 9794824

Distinguishable patterns of protein-DNA interactions involving complexes of basic helix-loop-helix proteins.

Doyle K, Zhang Y, Baer R, Bina M

The Journal of biological chemistry. 1994 ; 269 (16) : 12099-12105.

PMID 8163514

Genomic organization of human TCF12 gene and spliced mRNA variants producing isoforms of transcription factor HTF4.

Gan TI, Rowen L, Nesbitt R, Roe BA, Wu H, Hu P, Yao Z, Kim UJ, O'Sickey T, Bina M

Cytogenetic and genome research. 2002 ; 98 (4) : 245-248.

PMID 12826747

HEB, a helix-loop-helix protein related to E2A and ITF2 that can modulate the DNA-binding ability of myogenic regulatory factors.

Hu JS, Olson EN, Kingston RE

Molecular and cellular biology. 1992 ; 12 (3) : 1031-1042.

PMID 1312219

bHLH transcription factors and mammalian neuronal differentiation.

Kageyama R, Ishibashi M, Takebayashi K, Tomita K

The international journal of biochemistry & cell biology. 1997 ; 29 (12) : 1389-1399.

PMID 9570134

Oncogenic conversion of a novel orphan nuclear receptor by chromosome translocation.

Labelle Y, Zucman J, Stenman G, Kindblom LG, Knight J, Turc-Carel C, Dockhorn-Dworniczak B, Mandahl N, Desmaze C, Peter M

Human molecular genetics. 1995 ; 4 (12) : 2219-2226.

PMID 8634690

Class A helix-loop-helix proteins are positive regulators of several cyclin-dependent kinase inhibitors' promoter activity and negatively affect cell growth.

Pagliuca A, Gallo P, De Luca P, Lania L

Cancer research. 2000 ; 60 (5) : 1376-1382.

PMID 10728702

A heterodimer of HEB and an E12-related protein interacts with the CD4 enhancer and regulates its activity in T-cell lines.

Sawada S, Littman DR

Molecular and cellular biology. 1993 ; 13 (9) : 5620-5628.

PMID 8355705

Fusion of the NH2-terminal domain of the basic helix-loop-helix protein TCF12 to TEC in extraskeletal myxoid chondrosarcoma with translocation t(9;15)(q22;q21).

Sjögren H, Wedell B, Meis-Kindblom JM, Kindblom LG, Stenman G

Cancer research. 2000 ; 60 (24) : 6832-6835.

PMID 11156374

HTF4: a new human helix-loop-helix protein.

Zhang Y, Babin J, Feldhaus AL, Singh H, Sharp PA, Bina M

Nucleic acids research. 1991 ; 19 (16) : page 4555.

PMID 1886779

The nucleotide sequence of the human transcription factor HTF4a cDNA.

Zhang Y, Bina M

DNA sequence : the journal of DNA sequencing and mapping. 1992 ; 2 (6) : 397-403.

PMID 1446075

Localization of the human HTF4 transcription factors 4 gene (TCF12) to chromosome 15q21.

Zhang Y, Flejter WL, Barcroft CL, Rivière M, Szpirer J, Szpirer C, Bina M

Cytogenetics and cell genetics. 1995 ; 68 (3-4) : 235-238.

PMID 7842744

Citation

This paper should be referenced as such :

Stenman, G

TCF12 (transcription factor 12)

Atlas Genet Cytogenet Oncol Haematol. 2003;7(3):174-175.

Free journal version : [ pdf ] [ DOI ]

On line version : http://AtlasGeneticsOncology.org/Genes/TCF12ID406.html

Other Leukemias implicated (Data extracted from papers in the Atlas)

Leukemias

TL_t1115q23q21ID2900

TL_t1521q21q22ID3181

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 11 ]

Solid Tumors	chondrosarcID5063	ExtraMyxChondroID5025	softissuTumID5042	TT_t0415q31q21ID106262	TT_t0615q23q21ID106943
	TT_t0915q22q21ID6605	TT_t1315q34q21ID101671	TT_t1515q21q21ID101944	TT_t1515q21q21ID101955	TT_t1515q21q22ID101960
	TT_t1519q21q13ID102053

External links

	Nomenclature
HGNC (Hugo)	TCF12 11623
	Cards
Atlas	TCF12ID406
Entrez_Gene (NCBI)	TCF12 6938 transcription factor 12
Aliases	CRS3; HEB; HTF4; HsT17266;
	TCF-12; bHLHb20; p64
GeneCards (Weizmann)	TCF12
Ensembl hg19 (Hinxton)	ENSG00000140262 [Gene_View]
Ensembl hg38 (Hinxton)	ENSG00000140262 [Gene_View] ENSG00000140262 [Sequence] chr15:57219457-57288516 [Contig_View] TCF12 [Vega]
ICGC DataPortal	ENSG00000140262
TCGA cBioPortal	TCF12
AceView (NCBI)	TCF12
Genatlas (Paris)	TCF12
WikiGenes	6938
SOURCE (Princeton)	TCF12
Genetics Home Reference (NIH)	TCF12
	Genomic and cartography
GoldenPath hg38 (UCSC)	TCF12 - chr15:57219457-57288516 + 15q21.3 [Description] (hg38-Dec_2013)
GoldenPath hg19 (UCSC)	TCF12 - 15q21.3 [Description] (hg19-Feb_2009)
GoldenPath	TCF12 - 15q21.3 [CytoView hg19] TCF12 - 15q21.3 [CytoView hg38]
ImmunoBase	ENSG00000140262
Mapping of homologs : NCBI	TCF12 [Mapview hg19] TCF12 [Mapview hg38]
OMIM	600480 615314
	Gene and transcription
Genbank (Entrez)	AI269491 AK022018 AK056961 AK294617 AK294991
RefSeq transcript (Entrez)	NM_001306219 NM_001306220 NM_001322151 NM_001322152 NM_001322154 NM_001322156 NM_001322157 NM_001322158 NM_001322159 NM_001322161 NM_001322162 NM_001322164 NM_001322165 NM_003205 NM_207036 NM_207037 NM_207038 NM_207040
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)	TCF12
Alternative Splicing Gallery	ENSG00000140262
Gene Expression	TCF12 [ NCBI-GEO ] TCF12 [ EBI - ARRAY_EXPRESS ] TCF12 [ SEEK ] TCF12 [ MEM ]
Gene Expression Viewer (FireBrowse)	TCF12 [ Firebrowse - Broad ]
SOURCE (Princeton)	Expression in : [Datasets] [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
Genevestigator	Expression in : [tissues] [cell-lines] [cancer] [perturbations]
BioGPS (Tissue expression)	6938
GTEX Portal (Tissue expression)	TCF12
Human Protein Atlas	ENSG00000140262-TCF12 [pathology] [cell] [tissue]
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	Q99081 [function] [subcellular_location] [family_and_domains] [pathology_and_biotech] [ptm_processing] [expression] [interaction]
NextProt	Q99081 [Sequence] [Exons] [Medical] [Publications]
With graphics : InterPro	Q99081
Splice isoforms : SwissVar	Q99081
PhosPhoSitePlus	Q99081
Domaine pattern : Prosite (Expaxy)	BHLH (PS50888)
Domains : Interpro (EBI)	bHLH_dom HLH_DNA-bd_sf
Domain families : Pfam (Sanger)	HLH (PF00010)
Domain families : Pfam (NCBI)	pfam00010
Domain families : Smart (EMBL)	HLH (SM00353)
Conserved Domain (NCBI)	TCF12
DMDM Disease mutations	6938
Blocks (Seattle)	TCF12
PDB (RSDB)	2KNH 4JOL
PDB Europe	2KNH 4JOL
PDB (PDBSum)	2KNH 4JOL
PDB (IMB)	2KNH 4JOL
Structural Biology KnowledgeBase	2KNH 4JOL
SCOP (Structural Classification of Proteins)	2KNH 4JOL
CATH (Classification of proteins structures)	2KNH 4JOL
Superfamily	Q99081
Human Protein Atlas [tissue]	ENSG00000140262-TCF12 [tissue]
Peptide Atlas	Q99081
HPRD	02725
IPI	IPI00012966 IPI00384979 IPI00384333 IPI01010229 IPI01013422 IPI01018775 IPI00940466 IPI01009406 IPI00883875
	Protein Interaction databases
DIP (DOE-UCLA)	Q99081
IntAct (EBI)	Q99081
FunCoup	ENSG00000140262
BioGRID	TCF12
STRING (EMBL)	TCF12
ZODIAC	TCF12
	Ontologies - Pathways
QuickGO	Q99081
Ontology : AmiGO	nuclear chromatin nuclear chromatin RNA polymerase II proximal promoter sequence-specific DNA binding RNA polymerase II proximal promoter sequence-specific DNA binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription factor activity DNA-binding transcription factor activity protein binding nucleus nucleus nucleoplasm nucleoplasm transcription factor complex cytoplasm regulation of transcription by RNA polymerase II immune response muscle organ development transcription factor binding nuclear speck enhancer binding cAMP response element binding protein homodimerization activity intracellular membrane-bounded organelle bHLH transcription factor binding bHLH transcription factor binding transcription regulatory region DNA binding positive regulation of neuron differentiation positive regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II SMAD binding protein heterodimerization activity E-box binding HMG box domain binding RNA polymerase II transcription factor complex regulation of hematopoietic stem cell differentiation
Ontology : EGO-EBI	nuclear chromatin nuclear chromatin RNA polymerase II proximal promoter sequence-specific DNA binding RNA polymerase II proximal promoter sequence-specific DNA binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription factor activity DNA-binding transcription factor activity protein binding nucleus nucleus nucleoplasm nucleoplasm transcription factor complex cytoplasm regulation of transcription by RNA polymerase II immune response muscle organ development transcription factor binding nuclear speck enhancer binding cAMP response element binding protein homodimerization activity intracellular membrane-bounded organelle bHLH transcription factor binding bHLH transcription factor binding transcription regulatory region DNA binding positive regulation of neuron differentiation positive regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II SMAD binding protein heterodimerization activity E-box binding HMG box domain binding RNA polymerase II transcription factor complex regulation of hematopoietic stem cell differentiation
REACTOME	Q99081 [protein]
REACTOME Pathways	R-HSA-8939236 [pathway]
NDEx Network	TCF12
Atlas of Cancer Signalling Network	TCF12
Wikipedia pathways	TCF12
	Orthology - Evolution
OrthoDB	6938
GeneTree (enSembl)	ENSG00000140262
Phylogenetic Trees/Animal Genes : TreeFam	TCF12
HOGENOM	Q99081
Homologs : HomoloGene	TCF12
Homology/Alignments : Family Browser (UCSC)	TCF12
	Gene fusions - Rearrangements
Fusion : Mitelman	CGNL1/TCF12 [15q21.3/15q21.3] [t(15;15)(q21;q21)]
Fusion : Mitelman	MAP3K5/TCF12 [6q23.3/15q21.3] [t(6;15)(q23;q21)]
Fusion : Mitelman	RNF111/TCF12 [15q22.1/15q21.3] [t(15;15)(q21;q22)]
Fusion : Mitelman	TCF12/MGST2 [15q21.3/4q31.1] [t(4;15)(q31;q21)]
Fusion : Mitelman	TCF12/NPAS1 [15q21.3/19q13.32] [t(15;19)(q21;q13)]
Fusion : Mitelman	TCF12/NR4A3 [15q21.3/9q22.33] [t(9;15)(q31;q21)]
Fusion : Mitelman	TCF12/TEX9 [15q21.3/15q21.3] [t(15;15)(q21;q21)]
Fusion : Mitelman	TCF12/TMEM255B [15q21.3/13q34] [t(13;15)(q34;q21)]
Fusion : COSMIC	TCF12 [15q21.3] - NR4A3 [9q31.1] [fusion_754]
Fusion Portal	CGNL1 15q21.3 TCF12 15q21.3 BRCA
Fusion Portal	RNF111 15q22.1 TCF12 15q21.3 BRCA
Fusion Portal	TCF12 15q21.3 FAM70B BRCA
Fusion Portal	TCF12 15q21.3 MGST2 4q31.1 BRCA
Fusion Portal	TCF12 15q21.3 NPAS1 19q13.32 PRAD
Fusion Portal	TCF12 15q21.3 TEX9 15q21.3 BRCA
Fusion : FusionGDB	13614 16706 19812 22032 29021 31376 32244 37540 37541 37542 37543 37544 37545 37546 37547
	37548 37549 37550 37551 37552 37553 37554 37555 37556 37557 37558 37559 37560 37561 39942
	5981
Fusion : Fusion_Hub	AQP9--TCF12 BCL7C--TCF12 CCNB2--TCF12 CERS6--TCF12 CGNL1--TCF12 COL4A2--TCF12 ECT2--TCF12 FMNL2--TCF12 GLCE--TCF12 GRIN2B--TCF12 HOXB3--TCF12 JARID2--TCF12 JMJD1C--TCF12 KCTD8--TCF12 KMT2A--TCF12
	LIPC--TCF12 MAP3K5--TCF12 MGLL--TCF12 MIR548H3--TCF12 NR4A3--TCF12 OSCP1--TCF12 PRTG--TCF12 PTEN--TCF12 RBM33--TCF12 RGMA--TCF12 RNF111--TCF12 RREB1--TCF12 RUNX1--TCF12 SLC16A7--TCF12 SNX2--TCF12
	STXBP6--TCF12 TCF12--AKAP13 TCF12--B2M TCF12--BPGM TCF12--BTNL9 TCF12--C10ORF68 TCF12--C15ORF27 TCF12--C1ORF101 TCF12--C7 TCF12--C9ORF64 TCF12--CHD2 TCF12--CHN TCF12--CHP1 TCF12--CLIP2 TCF12--CMAS
	TCF12--CTBP1 TCF12--DDX39B TCF12--DENND4A TCF12--DSCAM TCF12--DTWD1 TCF12--DYM TCF12--EGLN1 TCF12--EIF5B TCF12--FAM70B TCF12--FTL TCF12--GNAS TCF12--GPR137B TCF12--IL4R TCF12--KMT2A TCF12--MAP3K5
	TCF12--MGST2 TCF12--MLIP TCF12--MLL TCF12--MORF4L1 TCF12--NCOA3 TCF12--NDUFA10 TCF12--NEK1 TCF12--NPAS1 TCF12--NPTN TCF12--NR4A3 TCF12--OSCP1 TCF12--PRKCZ TCF12--PRPF40A TCF12--Q6UXQ8_HUMAN TCF12--RAB12
	TCF12--RGMA TCF12--RPL12 TCF12--SCAPER TCF12--SERGEF TCF12--SLTM TCF12--SNURF TCF12--SPIN1 TCF12--SPPL2A TCF12--TCF12 TCF12--TEC TCF12--TEX9 TCF12--TMEM255B TCF12--TMEM87A TCF12--TRMT11 TCF12--TTC23
	TCF12--UBR5 TCF12--VAPA TCF12--ZBTB44 TCF12--ZNF133 TEC--TCF12 TTC23--TCF12 UBL7--TCF12 WDR78--TCF12 ZNF280D--TCF12
Fusion : Quiver	TCF12
	Polymorphisms : SNP and Copy number variants
NCBI Variation Viewer	TCF12 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	TCF12
dbVar	TCF12
ClinVar	TCF12
1000_Genomes	TCF12
Exome Variant Server	TCF12
ExAC (Exome Aggregation Consortium)	ENSG00000140262
GNOMAD Browser	ENSG00000140262
Varsome Browser	TCF12
Genetic variants : HAPMAP	6938
Genomic Variants (DGV)	TCF12 [DGVbeta]
DECIPHER	TCF12 [patients] [syndromes] [variants] [genes]
CONAN: Copy Number Analysis	TCF12
	Mutations
ICGC Data Portal	TCF12
TCGA Data Portal	TCF12
Broad Tumor Portal	TCF12
OASIS Portal	TCF12 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMIC	TCF12 [overview] [genome browser] [tissue] [distribution]
Somatic Mutations in Cancer : COSMIC3D	TCF12
Mutations and Diseases : HGMD	TCF12
intOGen Portal	TCF12
LOVD (Leiden Open Variation Database)	Whole genome datasets
LOVD (Leiden Open Variation Database)	LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)	LOVD 3.0 shared installation
BioMuta	search TCF12
DgiDB (Drug Gene Interaction Database)	TCF12
DoCM (Curated mutations)	TCF12 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)	TCF12 (select a term)
intoGen	TCF12
NCG5 (London)	TCF12
Cancer3D	TCF12(select the gene name)
Impact of mutations	[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
	Diseases
OMIM	600480 615314
Orphanet	18668 10369 10368
DisGeNET	TCF12
Medgen	TCF12
Genetic Testing Registry	TCF12
NextProt	Q99081 [Medical]
TSGene	6938
GENETests	TCF12
Target Validation	TCF12
Huge Navigator	TCF12 [HugePedia]
snp3D : Map Gene to Disease	6938
BioCentury BCIQ	TCF12
ClinGen	TCF12 (curated)
	Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD	6938
Chemical/Pharm GKB Gene	PA36381
Clinical trial	TCF12
	Miscellaneous
canSAR (ICR)	TCF12 (select the gene name)
DataMed Index	TCF12
	Probes
	Litterature
PubMed	91 Pubmed reference(s) in Entrez
GeneRIFs	Gene References Into Functions (Entrez)
CoreMine	TCF12
EVEX	TCF12
GoPubMed	TCF12
iHOP	TCF12

REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

indexed on : Wed Feb 19 16:22:56 CET 2020

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