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    Tcf25 transcription factor 25 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 292082, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Tcf25provided by RGD
    Official Full Name
    transcription factor 25provided by RGD
    Primary source
    RGD:1309054
    See related
    EnsemblRapid:ENSRNOG00000017023 AllianceGenome:RGD:1309054
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1309054
    Summary
    Predicted to enable transcription corepressor activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; regulation of protein K48-linked ubiquitination; and rescue of stalled ribosome. Predicted to be located in cytoplasm. Predicted to be part of RQC complex. Predicted to be active in nucleus. Orthologous to human TCF25 (transcription factor 25). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 326.9), Adrenal (RPKM 225.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tcf25 in Genome Data Viewer
    Location:
    19q12
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (68323789..68358226)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (51415341..51449725)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (56178905..56213299)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORD43 Neighboring gene FA complementation group A Neighboring gene spire-type actin nucleation factor 2 Neighboring gene melanocortin 1 receptor Neighboring gene tubulin, beta 3 class III

    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. hnulp1, a basic helix-loop-helix protein with a novel transcriptional repressive domain, inhibits transcriptional activity of serum response factor. Cai Z, et al. Biochem Biophys Res Commun, 2006 May 12. PMID 16574069
    2. Nulp1, a novel basic helix-loop-helix protein expressed broadly during early embryonic organogenesis and prominently in developing dorsal root ganglia. Olsson M, et al. Cell Tissue Res, 2002 Jun. PMID 12107429
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables transcription corepressor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in rescue of stalled ribosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of RQC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of RQC complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus 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
    ribosome quality control complex subunit TCF25
    Names
    transcription factor 25 (basic helix-loop-helix)

    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_001400950.2 → NP_001387879.1  ribosome quality control complex subunit TCF25 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      Related
      ENSRNOP00000096792.2, ENSRNOT00000105294.2

    2. NM_001400951.1 → NP_001387880.1  ribosome quality control complex subunit TCF25 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019

    3. NM_001400952.1 → NP_001387881.1  ribosome quality control complex subunit TCF25 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6AR72

    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_086037.1 Reference GRCr8

      Range
      68323789..68358226
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006255794.4 → XP_006255856.1  ribosome quality control complex subunit TCF25 isoform X4

      See identical proteins and their annotated locations for XP_006255856.1

      UniProtKB/TrEMBL
      A0A8I6GHP2, A6IZX9
      Related
      ENSRNOP00000080994.1, ENSRNOT00000112610.2
      Conserved Domains (1) summary
      pfam04910
      Location:249 → 589
      Tcf25; Transcriptional repressor TCF25

    2. XM_006255792.5 → XP_006255854.1  ribosome quality control complex subunit TCF25 isoform X1

      See identical proteins and their annotated locations for XP_006255854.1

      UniProtKB/TrEMBL
      A0A8I6ASZ5, D3ZC46
      Related
      ENSRNOP00000048508.5, ENSRNOT00000046155.8
      Conserved Domains (1) summary
      pfam04910
      Location:249 → 589
      Tcf25; Transcriptional repressor TCF25

    3. XM_006255793.5 → XP_006255855.1  ribosome quality control complex subunit TCF25 isoform X2

      See identical proteins and their annotated locations for XP_006255855.1

      UniProtKB/TrEMBL
      A0A8I6ASZ5
      Conserved Domains (1) summary
      pfam04910
      Location:224 → 564
      Tcf25; Transcriptional repressor TCF25

    4. XM_063277952.1 → XP_063134022.1  ribosome quality control complex subunit TCF25 isoform X3

    5. XM_063277953.1 → XP_063134023.1  ribosome quality control complex subunit TCF25 isoform X5

    6. XM_063277954.1 → XP_063134024.1  ribosome quality control complex subunit TCF25 isoform X6

      UniProtKB/TrEMBL
      A0A8I6A7W6
      Related
      ENSRNOP00000088994.2, ENSRNOT00000096732.2
    Nucleotide Protein Strain
    Heading Accession and Version

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