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Ttf1 transcription termination factor, RNA polymerase I [ Mus musculus (house mouse) ]

Gene ID: 22130, updated on 5-Mar-2024

Summary

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Official Symbol
Ttf1provided by MGI
Official Full Name
transcription termination factor, RNA polymerase Iprovided by MGI
Primary source
MGI:MGI:105044
See related
Ensembl:ENSMUSG00000026803 AllianceGenome:MGI:105044
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
TTF-1; TTF-I
Summary
Enables DNA binding activity and chromatin binding activity. Acts upstream of or within chromatin remodeling; termination of RNA polymerase I transcription; and transcription initiation from RNA polymerase I promoter. Located in nucleus. Is expressed in early conceptus and genitourinary system. Orthologous to human TTF1 (transcription termination factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information
Note: Ttf1 (GeneID 22130) and Nkx2-1 (GeneID 21869) loci share the Ttf1 symbol/alias in common. Ttf1 is a widely used alternative name for thyroid transcription factor 1 (Nkx2-1) conflicting with the official symbol for transcription termination factor, RNA polymerase I (Ttf1). [13 Feb 2013]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 5.0), bladder adult (RPKM 3.8) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 A3; 2 19.38 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (28950211..28977668)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (29060199..29087656)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene cilia and flagella associated protein 77 Neighboring gene STARR-positive B cell enhancer ABC_E4422 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:28916086-28916195 Neighboring gene STARR-seq mESC enhancer starr_04036 Neighboring gene STARR-seq mESC enhancer starr_04037 Neighboring gene STARR-seq mESC enhancer starr_04038 Neighboring gene STARR-seq mESC enhancer starr_04039 Neighboring gene ring finger and WD repeat domain 2 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:28980423-28980610 Neighboring gene STARR-positive B cell enhancer ABC_E5902 Neighboring gene STARR-seq mESC enhancer starr_04042 Neighboring gene STARR-seq mESC enhancer starr_04043 Neighboring gene senataxin

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Chromatin-specific regulation of mammalian rDNA transcription by clustered TTF-I binding sites. Diermeier SD, et al. PLoS Genet, 2013. PMID 24068958, Free PMC Article
  2. Epigenetic regulation of TTF-I-mediated promoter-terminator interactions of rRNA genes. Németh A, et al. EMBO J, 2008 Apr 23. PMID 18354495, Free PMC Article
  3. Termination of mammalian rDNA replication: polar arrest of replication fork movement by transcription termination factor TTF-I. Gerber JK, et al. Cell, 1997 Aug 8. PMID 9267035
  4. Oligomerization of the transcription termination factor TTF-I: implications for the structural organization of ribosomal transcription units. Sander EE, et al. Nucleic Acids Res, 1997 Mar 15. PMID 9092622, Free PMC Article
  5. The Short N-Terminal Repeats of Transcription Termination Factor 1 Contain Semi-Redundant Nucleolar Localization Signals and P19-ARF Tumor Suppressor Binding Sites. Boutin J, et al. Yale J Biol Med, 2019 Sep. PMID 31543703, Free PMC Article

See all (49) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The data suggest that the N-terminal repeats of mouse TTF1, and by analogy those of human TTF1, cooperate to mediate both nucleolar localization and ARF binding
    Title: The Short N-Terminal Repeats of Transcription Termination Factor 1 Contain Semi-Redundant Nucleolar Localization Signals and P19-ARF Tumor Suppressor Binding Sites.
  2. Together with results showing involvement of TTF-1 in the TNF-alpha-induced increase in interleukin 1 beta and monocyte chemotactic protein 1 production, this study suggests that TTF-1 plays an important role in the mouse hypothalamus TNF-alpha-induced inflammatory response for regulating HO-1 gene expression.
    Title: Role of thyroid transcription factor-1 in transcriptional regulation of heme oxygenase-1.
  3. this study shows that in a mouse model of thyrocyte hyperplasia, proliferating thyrocytes were thyroid transcription factor (TTF1)-positive
    Title: Mechanisms and kinetics of proliferation and fibrosis development in a mouse model of thyrocyte hyperplasia.
  4. TTF-1 is expressed in lung during different stages of development.
    Title: Developmental lung expression and transcriptional regulation of claudin-6 by TTF-1, Gata-6, and FoxA2.
  5. Interaction of TTF-I with target sites upstream and downstream of the rDNA transcription unit connects these distal DNA elements by forming a chromatin loop between the rDNA promoter and the terminators.
    Title: Chromatin-specific regulation of mammalian rDNA transcription by clustered TTF-I binding sites.
  6. ErbB4 is a critical upstream regulator of TTF-1 in type II epithelial cells and that this interaction is important for Sftpb regulation.
    Title: ErbB4 is an upstream regulator of TTF-1 fetal mouse lung type II cell development in vitro.
  7. Otp and TTF-1 are essential for the normal morphological development of the hypothalamus, including the arcuate nucleus [review]
    Title: Role of homeobox genes in the hypothalamic development and energy balance.
  8. Depletion of TTF-I recapitulates the effects of ARF on ribosomal RNA synthesis and is rescued by the introduction of a TTF-I transgene.
    Title: The ARF tumor suppressor controls ribosome biogenesis by regulating the RNA polymerase I transcription factor TTF-I.
  9. Mediates interaction between promoter and terminator regions, which brings the beginning and end of active ribosomal RNA genes into close contact.
    Title: Epigenetic regulation of TTF-I-mediated promoter-terminator interactions of rRNA genes.
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 MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA-templated transcription termination IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within chromatin remodeling IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within negative regulation of DNA replication IEA
Inferred from Electronic Annotation
more info
  
involved_in termination of RNA polymerase I transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within termination of RNA polymerase I transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in termination of RNA polymerase I transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in transcription by RNA polymerase I IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within transcription initiation at RNA polymerase I promoter IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleolus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
transcription termination factor 1
Names
RNA polymerase I termination factor
transcription termination factor I

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_001421169.1 → NP_001408098.1  transcription termination factor 1 isoform a

    Status: VALIDATED

    Source sequence(s)
    AL845267
    UniProtKB/Swiss-Prot
    Q62187, Q9JKK5

  2. NM_001421170.1 → NP_001408099.1  transcription termination factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    AL845267

  3. NM_009442.2 → NP_033468.2  transcription termination factor 1 isoform a

    See identical proteins and their annotated locations for NP_033468.2

    Status: VALIDATED

    Source sequence(s)
    AK163606, BC059011, BE332152, BU757299
    Consensus CDS
    CCDS38089.1
    UniProtKB/Swiss-Prot
    Q62187, Q9JKK5
    Related
    ENSMUSP00000097809.4, ENSMUST00000100237.4
    Conserved Domains (1) summary
    pfam13921
    Location:595 → 650
    Myb_DNA-bind_6; Myb-like DNA-binding domain

RNA

  1. NR_185261.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL845267

  2. NR_185262.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL845267

  3. NR_185263.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL845267

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    28950211..28977668
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036160512.1 → XP_036016405.1  transcription termination factor 1 isoform X1

    Conserved Domains (1) summary
    pfam13921
    Location:625 → 680
    Myb_DNA-bind_6; Myb-like DNA-binding domain

RNA

  1. XR_004939514.1 RNA Sequence

  2. XR_374068.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q62187.2 GenPept UniProtKB/Swiss-Prot:Q62187

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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