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    Tcf20 transcription factor 20 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 366964, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Tcf20provided by RGD
    Official Full Name
    transcription factor 20provided by RGD
    Primary source
    RGD:1594486
    See related
    EnsemblRapid:ENSRNOG00000009585 AllianceGenome:RGD:1594486
    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
    AR1; SPBP
    Summary
    Predicted to enable DNA-binding transcription factor activity; transcription cis-regulatory region binding activity; and transcription coactivator activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in nuclear body. Predicted to be active in nucleus. Orthologous to human TCF20 (transcription factor 20). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 240.6), Spleen (RPKM 179.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tcf20 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (115833523..116009790, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (113953449..114104166, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (123670135..123767797, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene cytochrome P450, family 2, subfamily d, polypeptide 3 Neighboring gene cytochrome P450, family 2, subfamily d, polypeptide 2 Neighboring gene uncharacterized LOC134479801 Neighboring gene NFAT activating protein with ITAM motif 1 Neighboring gene uncharacterized LOC103692952

    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. The nuclear factor SPBP contains different functional domains and stimulates the activity of various transcriptional activators. Rekdal C, et al. J Biol Chem, 2000 Dec 22. PMID 10995766
    2. Interaction between the transcription factor SPBP and the positive cofactor RNF4. An interplay between protein binding zinc fingers. Lyngsø C, et al. J Biol Chem, 2000 Aug 25. PMID 10849425
    3. Molecular characterization of a novel transcription factor that controls stromelysin expression. Sanz L, et al. Mol Cell Biol, 1995 Jun. PMID 7760812, Free PMC Article
    4. Localization of 54 rat genes, and definition of new synteny groups conserved in the human and the rat. Szpirer C, et al. Mamm Genome, 2000 Sep. PMID 10967130
    5. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II 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
    		  
    Component Evidence Code Pubs
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription factor 20
    Names
    stromelysin-1 platelet-derived growth factor-responsive element binding protein

    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_001130574.1 → NP_001124046.1  transcription factor 20

      See identical proteins and their annotated locations for NP_001124046.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473950
      UniProtKB/TrEMBL
      A0A8I5ZW43, A6HT77, D3ZG21
      Related
      ENSRNOP00000012699.4, ENSRNOT00000012699.6
      Conserved Domains (1) summary
      cd15699
      Location:1737 → 1964
      ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

    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_086025.1 Reference GRCr8

      Range
      115833523..116009790 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008765772.4 → XP_008763994.1  transcription factor 20 isoform X3

      See identical proteins and their annotated locations for XP_008763994.1

      UniProtKB/TrEMBL
      A0A8I5ZW43, A6HT77, D3ZG21
      Conserved Domains (1) summary
      cd15699
      Location:1737 → 1964
      ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

    2. XM_063264058.1 → XP_063120128.1  transcription factor 20 isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBI4, A0A8I5ZW43

    3. XM_039079693.2 → XP_038935621.1  transcription factor 20 isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBI4, A0A8I5ZW43
      Conserved Domains (1) summary
      cd15699
      Location:1737 → 1964
      ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

    4. XM_063264059.1 → XP_063120129.1  transcription factor 20 isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBI4, A0A8I5ZW43
      Related
      ENSRNOP00000076866.1, ENSRNOT00000113856.2

    5. XM_006242112.5 → XP_006242174.1  transcription factor 20 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZW43
      Conserved Domains (1) summary
      cd15699
      Location:1737 → 1964
      ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

    6. XM_006242110.5 → XP_006242172.1  transcription factor 20 isoform X1

      UniProtKB/TrEMBL
      A0A8I5YBI4, A0A8I5ZW43
      Conserved Domains (1) summary
      cd15699
      Location:1737 → 1964
      ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
    Nucleotide Protein Strain
    Heading Accession and Version

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