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    TMF1 TATA element modulatory factor 1 [ Homo sapiens (human) ]

    Gene ID: 7110, updated on 28-Oct-2024

    Summary

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    Official Symbol
    TMF1provided by HGNC
    Official Full Name
    TATA element modulatory factor 1provided by HGNC
    Primary source
    HGNC:HGNC:11870
    See related
    Ensembl:ENSG00000144747 MIM:601126; AllianceGenome:HGNC:11870
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TMF; ARA160
    Summary
    Enables nuclear androgen receptor binding activity and nuclear receptor coactivator activity. Involved in androgen receptor signaling pathway and positive regulation of transcription by RNA polymerase II. Located in Golgi apparatus. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in testis (RPKM 20.2), thyroid (RPKM 13.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TMF1 in Genome Data Viewer
    Location:
    3p14.1
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (69019827..69052333, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (69056599..69089119, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (69068978..69101484, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene TAFA chemokine like family member 4 Neighboring gene RNA, 5S ribosomal pseudogene 135 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:68968097-68968699 Neighboring gene Sharpr-MPRA regulatory region 589 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14514 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14515 Neighboring gene EGF domain specific O-linked N-acetylglucosamine transferase Neighboring gene EOGT divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20050 Neighboring gene microRNA 3136 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14516 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14517 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14518 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20051 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20052 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20053 Neighboring gene ubiquitin like modifier activating enzyme 3 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:69152971-69154170 Neighboring gene ARF like GTPase 6 interacting protein 5 Neighboring gene leiomodin 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Cloning and chromosomal mapping of a human immunodeficiency virus 1 "TATA" element modulatory factor. Garcia JA, et al. Proc Natl Acad Sci U S A, 1992 Oct 15. PMID 1409643, Free PMC Article
    2. Molecular insights into vesicle tethering at the Golgi by the conserved oligomeric Golgi (COG) complex and the golgin TATA element modulatory factor (TMF). Miller VJ, et al. J Biol Chem, 2013 Feb 8. PMID 23239882, Free PMC Article
    3. Functional involvement of TMF/ARA160 in Rab6-dependent retrograde membrane traffic. Yamane J, et al. Exp Cell Res, 2007 Oct 1. PMID 17698061
    4. TMF/ARA160 downregulates proangiogenic genes and attenuates the progression of PC3 xenografts. Abrham G, et al. Int J Cancer, 2009 Jul 1. PMID 19330832
    5. Tyrosine phosphorylation of the TATA element modulatory factor by the FER nuclear tyrosine kinases. Schwartz Y, et al. FEBS Lett, 1998 Sep 4. PMID 9742951

    See all (63) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. In the nucleus, PDGFRbeta formed ligand-inducible complexes with the tyrosine kinase Fer and its substrate, TATA element-modifying factor 1 (TMF-1).
      Title: PDGFRβ translocates to the nucleus and regulates chromatin remodeling via TATA element-modifying factor 1.
    2. In patient with chronic granulomatous disease, a 5.8-kb, incomplete and partly exonized TMF1 transcript was identified in intron 1 of CYBB, in opposite orientation to the host gene.
      Title: Primary immunodeficiency caused by an exonized retroposed gene copy inserted in the CYBB gene.
    3. COG complex interacts with two different Rabs in addition to each end of the golgin "TATA element modulatory factor" (TMF).
      Title: Molecular insights into vesicle tethering at the Golgi by the conserved oligomeric Golgi (COG) complex and the golgin TATA element modulatory factor (TMF).
    4. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    5. Overexpression of TMF/ARA160 downregulates proangiogenic genes and attenuates the progression of prostate cancer xenografts.
      Title: TMF/ARA160 downregulates proangiogenic genes and attenuates the progression of PC3 xenografts.
    6. These observations suggest critical roles for TMF in two Rab6-dependent retrograde transport processes: one from endosomes to the Golgi and the other from the Golgi to the endoplasmic reticulum.
      Title: Functional involvement of TMF/ARA160 in Rab6-dependent retrograde membrane traffic.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    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 GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nuclear androgen receptor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables nuclear receptor coactivator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in Leydig cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in acrosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in androgen receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in defense response to bacterium IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in epithelial cell apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in flagellated sperm motility IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in luteinizing hormone secretion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of epithelial cell apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of cytokine production IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of testosterone secretion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of proteasomal protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in spermatid nucleus differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    TATA element modulatory factor
    Names
    androgen receptor coactivator 160 kDa protein
    androgen receptor-associated protein of 160 kDa

    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_001363879.1 → NP_001350808.1  TATA element modulatory factor isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC109587, BC143840, DC401240
      Consensus CDS
      CCDS87105.1
      UniProtKB/TrEMBL
      B4DQY7
      Related
      ENSP00000494067.1, ENST00000646708.1
      Conserved Domains (2) summary
      pfam12325
      Location:979 → 1090
      TMF_TATA_bd; TATA element modulatory factor 1 TATA binding
      cl25732
      Location:457 → 1093
      SMC_N; RecF/RecN/SMC N terminal domain

    2. NM_007114.3 → NP_009045.2  TATA element modulatory factor isoform 1

      See identical proteins and their annotated locations for NP_009045.2

      Status: VALIDATED

      Source sequence(s)
      AB209109, AC109587, AL040699, BC033771, BU689613
      Consensus CDS
      CCDS43105.1
      UniProtKB/Swiss-Prot
      B7ZLJ2, P82094, Q17R87, Q59GK0
      UniProtKB/TrEMBL
      B4DQY7
      Related
      ENSP00000381567.2, ENST00000398559.7
      Conserved Domains (5) summary
      COG4942
      Location:698 → 939
      EnvC; Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning]
      pfam00261
      Location:553 → 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
      cl21478
      Location:646 → 752
      ATP-synt_B; ATP synthase B/B' CF(0)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      69019827..69052333 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      69056599..69089119 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P82094.2 GenPept UniProtKB/Swiss-Prot:P82094

    Gene LinkOut

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

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