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

Gene ID: 114206, updated on 27-Nov-2024

Summary

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Official Symbol
Tmf1provided by RGD
Official Full Name
TATA element modulatory factor 1provided by RGD
Primary source
RGD:620551
See related
EnsemblRapid: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 nuclear 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, Nov 2024]
Expression
Biased expression in Muscle (RPKM 271.3), Testes (RPKM 270.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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 ARF like GTPase 6 interacting protein 5

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. 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

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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
is_active_in Golgi apparatus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
TATA element modulatory factor

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_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
    ENSRNOP00000070908.2, ENSRNOT00000087215.3
    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

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

    Related
    ENSRNOP00000070588.2, ENSRNOT00000083461.3
Nucleotide Protein Strain
Heading Accession and Version

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