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    Tcf7l1 transcription factor 7 like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312451, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Tcf7l1provided by RGD
    Official Full Name
    transcription factor 7 like 1provided by RGD
    Primary source
    RGD:1311671
    See related
    EnsemblRapid:ENSRNOG00000014753 AllianceGenome:RGD:1311671
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Tcf3
    Summary
    Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and beta-catenin binding activity. Predicted to be involved in canonical Wnt signaling pathway and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including axial mesoderm morphogenesis; regulation of DNA-templated transcription; and somatic stem cell population maintenance. Predicted to be located in chromatin; cytosol; and nucleoplasm. Predicted to be part of beta-catenin-TCF complex. Orthologous to human TCF7L1 (transcription factor 7 like 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 15.8), Heart (RPKM 10.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tcf7l1 in Genome Data Viewer
    Location:
    4q32
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (106238892..106404012, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (104680734..104846086, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (100492796..100660401, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene retinol saturase Neighboring gene uncharacterized LOC102549526 Neighboring gene trans-golgi network protein 2 Neighboring gene uncharacterized LOC102549458 Neighboring gene small nucleolar RNA SNORA36 family Neighboring gene potassium channel modulatory factor 1 Neighboring gene thymosin beta-10-like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Tcf3 is an integral component of the core regulatory circuitry of embryonic stem cells. Cole MF, et al. Genes Dev, 2008 Mar 15. PMID 18347094, Free PMC Article
    2. Synergistic nuclear import of NeuroD1 and its partner transcription factor, E47, via heterodimerization. Mehmood R, et al. Exp Cell Res, 2009 Jun 10. PMID 19272376
    3. Multiple roles for activated LEF/TCF transcription complexes during hair follicle development and differentiation. DasGupta R, et al. Development, 1999 Oct. PMID 10498690
    4. Repression of Nanog gene transcription by Tcf3 limits embryonic stem cell self-renewal. Pereira L, et al. Mol Cell Biol, 2006 Oct. PMID 16894029, Free PMC Article
    5. T-cell factor 3 regulates embryonic stem cell pluripotency and self-renewal by the transcriptional control of multiple lineage pathways. Tam WL, et al. Stem Cells, 2008 Aug. PMID 18467660, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Scx and E47 might modulate the primary chondrogenesis by associating with the Sox9-related transcriptional complex, and by binding to the conserved E-box on Col2a1 promoter.
      Title: Scleraxis and E47 cooperatively regulate the Sox9-dependent transcription.
    2. The nuclear import of NeuroD1 and E47 is energy-dependent and involves the Ran-mediated pathway.
      Title: Synergistic nuclear import of NeuroD1 and its partner transcription factor, E47, via heterodimerization.
    3. the SREBP-1c.BETA2.E47 complex is in a DNA looping structure which is required for efficient recruitment of CREB-binding protein/p300
      Title: Sterol regulatory element-binding proteins activate insulin gene promoter directly and indirectly through synergy with BETA2/E47.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables beta-catenin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within anterior/posterior axis specification, embryo ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within axial mesoderm morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in canonical Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of somatic stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within skin development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within somatic stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of beta-catenin-TCF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription factor 7-like 1
    Names
    transcription factor 3
    transcription factor 7-like 1 (T-cell specific, HMG-box)

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001107865.1 → NP_001101335.1  transcription factor 7-like 1

      See identical proteins and their annotated locations for NP_001101335.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473957
      UniProtKB/TrEMBL
      A6IAD2
      Conserved Domains (2) summary
      cd01388
      Location:344 → 415
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
      pfam08347
      Location:28 → 249
      CTNNB1_binding; N-terminal CTNNB1 binding

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      106238892..106404012 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039107580.2 → XP_038963508.1  transcription factor 7-like 1 isoform X1

      Related
      ENSRNOP00000081559.2, ENSRNOT00000106765.2
      Conserved Domains (2) summary
      cd01388
      Location:359 → 430
      SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
      pfam08347
      Location:28 → 264
      CTNNB1_binding; N-terminal CTNNB1 binding

    2. XM_039107582.2 → XP_038963510.1  transcription factor 7-like 1 isoform X3

      UniProtKB/TrEMBL
      F1M1R9
      Related
      ENSRNOP00000020005.7, ENSRNOT00000020005.9
      Conserved Domains (2) summary
      cd01388
      Location:345 → 416
      SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
      pfam08347
      Location:28 → 250
      CTNNB1_binding; N-terminal CTNNB1 binding

    3. XM_006236674.5 → XP_006236736.1  transcription factor 7-like 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZT78
      Conserved Domains (2) summary
      cd01388
      Location:358 → 429
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
      pfam08347
      Location:28 → 263
      CTNNB1_binding; N-terminal CTNNB1 binding
    Nucleotide Protein Strain
    Heading Accession and Version

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