U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Tmf1 TATA element modulatory factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 114206, updated on 6-Jun-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Tmf1provided by RGD
    Official Full Name
    TATA element modulatory factor 1provided by RGD
    Primary source
    RGD:620551
    See related
    Ensembl:ENSRNOG00000056462 AllianceGenome:RGD:620551
    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
    Summary
    Predicted to enable androgen receptor binding activity and nuclear receptor coactivator activity. Predicted to be involved in androgen receptor signaling pathway; positive regulation of transcription by RNA polymerase II; and regulation of proteasomal protein catabolic process. Predicted to act upstream of or within several processes, including Leydig cell differentiation; regulation of gene expression; and spermatid development. Predicted to be located in Golgi apparatus and endoplasmic reticulum. Orthologous to human TMF1 (TATA element modulatory factor 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 271.3), Testes (RPKM 270.7) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Tmf1 in Genome Data Viewer
    Location:
    4q34
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (131316630..131345666, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (129759952..129785705, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (129521986..129546024, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene TAFA chemokine like family member 4 Neighboring gene uncharacterized LOC134486821 Neighboring gene EGF domain specific O-linked N-acetylglucosamine transferase Neighboring gene small nucleolar RNA SNORA36 family Neighboring gene uncharacterized LOC120102348 Neighboring gene ubiquitin-like modifier activating enzyme 3 Neighboring gene ADP-ribosylation factor like GTPase 6 interacting protein 5

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Loss of TMF/ARA160 protein renders colonic mucus refractory to bacterial colonization and diminishes intestinal susceptibility to acute colitis. Bel S, et al. J Biol Chem, 2012 Jul 20. PMID 22553199, Free PMC Article
    2. Testosterone deficiency accompanied by testicular and epididymal abnormalities in TMF(-/-) mice. Elkis Y, et al. Mol Cell Endocrinol, 2013 Jan 5. PMID 23000399
    3. TMF/ARA160: A key regulator of sperm development. Lerer-Goldshtein T, et al. Dev Biol, 2010 Dec 1. PMID 20691678
    4. CTC1 deletion results in defective telomere replication, leading to catastrophic telomere loss and stem cell exhaustion. Gu P, et al. EMBO J, 2012 May 16. PMID 22531781, Free PMC Article
    5. trnp: A conserved mammalian gene encoding a nuclear protein that accelerates cell-cycle progression. Volpe M, et al. DNA Cell Biol, 2006 Jun. PMID 16792503

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables nuclear androgen receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nuclear receptor coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Leydig cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within acrosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in androgen receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cellular response to organic cyclic compound ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within defense response to bacterium ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of epithelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within flagellated sperm motility ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within luteinizing hormone secretion ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within male gonad development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of epithelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of cytokine production ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of testosterone secretion 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 proteasomal protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within spermatid development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within spermatid nucleus differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    TATA element modulatory factor

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_053671.2 → NP_446123.2  TATA element modulatory factor

      See identical proteins and their annotated locations for NP_446123.2

      Status: VALIDATED

      Source sequence(s)
      AF107843, BF415257, BM390672, BQ780433, CK470592, CK473511, CK602135, DY564782
      UniProtKB/TrEMBL
      A0A0G2JZ48, A6IBF4
      Related
      ENSRNOP00000070908.1, ENSRNOT00000087215.2
      Conserved Domains (5) summary
      COG4942
      Location:698 → 937
      EnvC; Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning]
      pfam00261
      Location:605 → 802
      Tropomyosin; Tropomyosin
      pfam12325
      Location:976 → 1087
      TMF_TATA_bd; TATA element modulatory factor 1 TATA binding
      pfam12329
      Location:542 → 615
      TMF_DNA_bd; TATA element modulatory factor 1 DNA binding
      cl03075
      Location:830 → 886
      GrpE; nucleotide exchange factor GrpE

    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
      131316630..131345666 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063285388.1 → XP_063141458.1  TATA element modulatory factor isoform X1

    2. XM_063285390.1 → XP_063141460.1  TATA element modulatory factor isoform X4

    3. XM_063285391.1 → XP_063141461.1  TATA element modulatory factor isoform X4

    4. XM_063285389.1 → XP_063141459.1  TATA element modulatory factor isoform X3

      UniProtKB/TrEMBL
      Q9QYA5

    5. XM_039106907.2 → XP_038962835.2  TATA element modulatory factor isoform X2

      UniProtKB/TrEMBL
      A0A0G2JYB3, A6IBF5
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous