Human Gene TCF7 (ENST00000342854.10_9) from GENCODE V47lift37
  Description: transcription factor 7, transcript variant 1 (from RefSeq NM_003202.5)
Gencode Transcript: ENST00000342854.10_9
Gencode Gene: ENSG00000081059.20_13
Transcript (Including UTRs)
   Position: hg19 chr5:133,450,372-133,483,901 Size: 33,530 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr5:133,450,598-133,481,994 Size: 31,397 Coding Exon Count: 10 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:133,450,372-133,483,901)mRNA (may differ from genome)Protein (384 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TCF7_HUMAN
DESCRIPTION: RecName: Full=Transcription factor 7; Short=TCF-7; AltName: Full=T-cell-specific transcription factor 1; Short=T-cell factor 1; Short=TCF-1;
FUNCTION: Transcriptional activator involved in T-cell lymphocyte differentiation. Necessary for the survival of CD4(+) CD8(+) immature thymocytes. Isoforms lacking the N-terminal CTNNB1 binding domain cannot fulfill this role. Binds to the T- lymphocyte-specific enhancer element (5'-WWCAAAG-3') found in the promoter of the CD3E gene. May also act as feedback transcriptional repressor of CTNNB1 and TCF7L2 target genes. TLE1, TLE2, TLE3 and TLE4 repress transactivation mediated by TCF7 and CTNNB1.
SUBUNIT: Binds the armadillo repeat of CTNNB1 and forms a stable complex. Interacts with AES, TLE1, TLE2, TLE3 and TLE4.
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Predominantly expressed in T-cells. Also detected in proliferating intestinal epithelial cells and in the basal epithelial cells of mammary gland epithelium.
INDUCTION: By TCF7L2 and CTNNB1.
SIMILARITY: Belongs to the TCF/LEF family.
SIMILARITY: Contains 1 HMG box DNA-binding domain.
SEQUENCE CAUTION: Sequence=CAA87441.1; Type=Erroneous translation; Note=Wrong choice of frame;

-  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: TCF7
Diseases sorted by gene-association score: cleidocranial dysplasia (8), colorectal cancer (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 15.36 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 88.44 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 -120.00226-0.531 Picture PostScript Text
3' UTR -591.601907-0.310 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
IPR013558 - CTNNB1-bd_N
IPR009071 - HMG_superfamily
IPR024940 - TCF/LEF

Pfam Domains:
PF00505 - HMG (high mobility group) box
PF08347 - N-terminal CTNNB1 binding
PF09011 - HMG-box domain

SCOP Domains:
47095 - HMG-box

ModBase Predicted Comparative 3D Structure on P36402
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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    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0008013 beta-catenin binding
GO:0043565 sequence-specific DNA binding
GO:0044212 transcription regulatory region DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006955 immune response
GO:0016055 Wnt signaling pathway
GO:0021915 neural tube development
GO:0030538 embryonic genitalia morphogenesis
GO:0033153 T cell receptor V(D)J recombination
GO:0042127 regulation of cell proliferation
GO:0044336 canonical Wnt signaling pathway involved in negative regulation of apoptotic process
GO:0046632 alpha-beta T cell differentiation
GO:0048557 embryonic digestive tract morphogenesis
GO:0048619 embryonic hindgut morphogenesis
GO:0060070 canonical Wnt signaling pathway
GO:0071353 cellular response to interleukin-4
GO:1904837 beta-catenin-TCF complex assembly

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005667 transcription factor complex
GO:0005719 nuclear euchromatin
GO:0016604 nuclear body


-  Descriptions from all associated GenBank mRNAs
  BC048769 - Homo sapiens transcription factor 7 (T-cell specific, HMG-box), mRNA (cDNA clone MGC:47735 IMAGE:6063270), complete cds.
BC072023 - Homo sapiens transcription factor 7 (T-cell specific, HMG-box), mRNA (cDNA clone MGC:88737 IMAGE:6292932), complete cds.
EU446661 - Synthetic construct Homo sapiens clone IMAGE:100070342; IMAGE:100011870; FLH262807.01L transcription factor 7 (T-cell specific, HMG-box) (TCF7) gene, encodes complete protein.
AL832816 - Homo sapiens mRNA; cDNA DKFZp667B0424 (from clone DKFZp667B0424).
AL834166 - Homo sapiens mRNA; cDNA DKFZp667C032 (from clone DKFZp667C032).
X59869 - Human TCF-1 mRNA for T cell factor 1 (splice form A).
X59870 - Human TCF-1 mRNA for T cell factor 1 (splice form B).
X59871 - Human TCF-1 mRNA for T cell factor 1 (splice form C).
AK057580 - Homo sapiens cDNA FLJ33018 fis, clone THYMU1000459, highly similar to Homo sapiens transcription factor 7 (T-cell specific, HMG-box) (TCF7), transcript variant 5, mRNA.
JD092680 - Sequence 73704 from Patent EP1572962.
AK093530 - Homo sapiens cDNA FLJ36211 fis, clone THYMU2000300, highly similar to Homo sapiens transcription factor 7 (T-cell specific, HMG-box) (TCF7), transcript variant 5, mRNA.
Z47361 - H.sapiens TCF-1 mRNA for T cell factor 1 splice form D.
Z47362 - H.sapiens TCF-1 mRNA for T cell factor 1 splice form E.
AK310591 - Homo sapiens cDNA, FLJ17633.
AK131428 - Homo sapiens cDNA FLJ16553 fis, clone SPLEN2004611.
AK093683 - Homo sapiens cDNA FLJ36364 fis, clone THYMU2007725, highly similar to Transcription factor 7.
AX748258 - Sequence 1783 from Patent EP1308459.
DQ600009 - Homo sapiens piRNA piR-38075, complete sequence.
Z47363 - H.sapiens TCF-1 mRNA for T cell factor 1 splice form F.
Z47364 - H.sapiens TCF-1 mRNA for T cell factor 1 splice form G.
JD101380 - Sequence 82404 from Patent EP1572962.
JD141972 - Sequence 122996 from Patent EP1572962.
JD078790 - Sequence 59814 from Patent EP1572962.
JD149034 - Sequence 130058 from Patent EP1572962.
JD098665 - Sequence 79689 from Patent EP1572962.
JD504949 - Sequence 485973 from Patent EP1572962.
JD338982 - Sequence 320006 from Patent EP1572962.
JD103654 - Sequence 84678 from Patent EP1572962.
JD156032 - Sequence 137056 from Patent EP1572962.
JD371123 - Sequence 352147 from Patent EP1572962.
JD062466 - Sequence 43490 from Patent EP1572962.
JD508575 - Sequence 489599 from Patent EP1572962.
JD240241 - Sequence 221265 from Patent EP1572962.
JD040579 - Sequence 21603 from Patent EP1572962.
JD090331 - Sequence 71355 from Patent EP1572962.
JD335966 - Sequence 316990 from Patent EP1572962.
JD146991 - Sequence 128015 from Patent EP1572962.
JD147497 - Sequence 128521 from Patent EP1572962.
JD201572 - Sequence 182596 from Patent EP1572962.
JD184963 - Sequence 165987 from Patent EP1572962.
JD523871 - Sequence 504895 from Patent EP1572962.
JD062510 - Sequence 43534 from Patent EP1572962.
JD546601 - Sequence 527625 from Patent EP1572962.
JD085673 - Sequence 66697 from Patent EP1572962.
JD281791 - Sequence 262815 from Patent EP1572962.
JD253193 - Sequence 234217 from Patent EP1572962.
JD098076 - Sequence 79100 from Patent EP1572962.
JD554432 - Sequence 535456 from Patent EP1572962.
JD371135 - Sequence 352159 from Patent EP1572962.
JD408031 - Sequence 389055 from Patent EP1572962.
JD225828 - Sequence 206852 from Patent EP1572962.
JD246922 - Sequence 227946 from Patent EP1572962.
JD238114 - Sequence 219138 from Patent EP1572962.
JD185850 - Sequence 166874 from Patent EP1572962.
JD127928 - Sequence 108952 from Patent EP1572962.
JD420551 - Sequence 401575 from Patent EP1572962.
JD173697 - Sequence 154721 from Patent EP1572962.
JD410075 - Sequence 391099 from Patent EP1572962.
JD410076 - Sequence 391100 from Patent EP1572962.
JD096693 - Sequence 77717 from Patent EP1572962.
JD144732 - Sequence 125756 from Patent EP1572962.
JD222213 - Sequence 203237 from Patent EP1572962.
JD461781 - Sequence 442805 from Patent EP1572962.
JD325444 - Sequence 306468 from Patent EP1572962.
JD257061 - Sequence 238085 from Patent EP1572962.
JD430323 - Sequence 411347 from Patent EP1572962.
JD529431 - Sequence 510455 from Patent EP1572962.
JD169703 - Sequence 150727 from Patent EP1572962.
JD306355 - Sequence 287379 from Patent EP1572962.
JD055221 - Sequence 36245 from Patent EP1572962.
JD125681 - Sequence 106705 from Patent EP1572962.
JD125682 - Sequence 106706 from Patent EP1572962.
JD395455 - Sequence 376479 from Patent EP1572962.
JD344562 - Sequence 325586 from Patent EP1572962.
JD138366 - Sequence 119390 from Patent EP1572962.
JD176199 - Sequence 157223 from Patent EP1572962.
JD333102 - Sequence 314126 from Patent EP1572962.
JD449832 - Sequence 430856 from Patent EP1572962.
JD355628 - Sequence 336652 from Patent EP1572962.
JD542081 - Sequence 523105 from Patent EP1572962.
JD210999 - Sequence 192023 from Patent EP1572962.
JD461966 - Sequence 442990 from Patent EP1572962.
JD518781 - Sequence 499805 from Patent EP1572962.
JD189889 - Sequence 170913 from Patent EP1572962.
JD427428 - Sequence 408452 from Patent EP1572962.
JD279786 - Sequence 260810 from Patent EP1572962.
JD295626 - Sequence 276650 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P36402 (Reactome details) participates in the following event(s):

R-HSA-8944352 TCF/LEF binds WNT promoters
R-HSA-4411351 TCF/LEF:CTNNB1 bind the AXIN2 gene
R-HSA-3364014 Recruitment of SET1 methyltransferase complex
R-HSA-201712 Beta-catenin:TCF associates with BCL9 and PYGO
R-HSA-3322422 Beta-catenin recruits SMARCA4
R-HSA-3322424 Beta-catenin recruits CDC73 and LEO1
R-HSA-3322427 Beta-catenin recruits CBP/p300
R-HSA-3451153 Beta-catenin recruits TRRAP/KAT5 HAT components
R-HSA-5665608 TCF:Beta-catenin binds SOX proteins
R-HSA-8944362 TCF/LEF:CTNNB1 bind canonical WNT target promoters
R-HSA-3299569 Beta-catenin displaces TLE:HDAC1 from TCF/LEF
R-HSA-8944349 TLE tetramers bind TCF/LEF at WNT promoters
R-HSA-8951428 RUNX3 binds CTNNB1:TCF7L2,(LEF1,TCF7L1,TCF7)
R-HSA-3364026 SET1 complex trimethylates H3K4 at the MYC gene
R-HSA-4641231 TLE recruits HDAC1 to WNT promoters
R-HSA-3451147 KAT5 HAT complex acetylates TCF4 gene at histone H4
R-HSA-4641265 Repression of WNT target genes
R-HSA-4411364 Binding of TCF/LEF:CTNNB1 to target gene promoters
R-HSA-201722 Formation of the beta-catenin:TCF transactivating complex
R-HSA-3769402 Deactivation of the beta-catenin transactivating complex
R-HSA-4086398 Ca2+ pathway
R-HSA-195253 Degradation of beta-catenin by the destruction complex
R-HSA-8951430 RUNX3 regulates WNT signaling
R-HSA-201681 TCF dependent signaling in response to WNT
R-HSA-3858494 Beta-catenin independent WNT signaling
R-HSA-195721 Signaling by WNT
R-HSA-8878159 Transcriptional regulation by RUNX3
R-HSA-162582 Signal Transduction
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B3KSH3, ENST00000342854.1, ENST00000342854.2, ENST00000342854.3, ENST00000342854.4, ENST00000342854.5, ENST00000342854.6, ENST00000342854.7, ENST00000342854.8, ENST00000342854.9, NM_003202, P36402, Q86WR9, Q9UKI4, TCF1, TCF7_HUMAN, uc317wlz.1, uc317wlz.2
UCSC ID: ENST00000342854.10_9
RefSeq Accession: NM_003202.5
Protein: P36402 (aka TCF7_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.