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

Gene ID: 312451, updated on 11-Apr-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
Ensembl: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 transcription, DNA-templated; and somatic stem cell population maintenance. Predicted to be located in 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, Apr 2022]
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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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
  • 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
  
part_of 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

    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
    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
    Related
    ENSRNOP00000081559.1
    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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