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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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