Aliases for TMF1 Gene

Aliases for TMF1 Gene

  • TATA Element Modulatory Factor 1 2 3 5
  • ARA160 2 3 4
  • TMF 2 3 4
  • Androgen Receptor-Associated Protein Of 160 KDa 3 4
  • Androgen Receptor Coactivator 160 KDa Protein 3 4
  • TATA Element Modulatory Factor 3 4
  • TMF1 5

External Ids for TMF1 Gene

Previous GeneCards Identifiers for TMF1 Gene

  • GC03M067611
  • GC03M068445
  • GC03M068892
  • GC03M069005
  • GC03M069155
  • GC03M069068

Summaries for TMF1 Gene

GeneCards Summary for TMF1 Gene

TMF1 (TATA Element Modulatory Factor 1) is a Protein Coding gene. Diseases associated with TMF1 include Achondrogenesis, Type Ia and Achondrogenesis. Among its related pathways are Retrograde transport at the Trans-Golgi-Network and Vesicle-mediated transport. Gene Ontology (GO) annotations related to this gene include transcription coregulator activity. An important paralog of this gene is MYO18A.

UniProtKB/Swiss-Prot Summary for TMF1 Gene

  • Potential coactivator of the androgen receptor. Mediates STAT3 degradation. May play critical roles in two RAB6-dependent retrograde transport processes: one from endosomes to the Golgi and the other from the Golgi to the ER. This protein binds the HIV-1 TATA element and inhibits transcriptional activation by the TATA-binding protein (TBP).

Gene Wiki entry for TMF1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TMF1 Gene

Genomics for TMF1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TMF1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J069050 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 267.5 +0.7 726 3.6 ZNF600 JUND ZNF580 ATF2 POLR2A BRCA1 YY1 MXD4 CEBPB SMAD5 TMF1 lnc-ARL6IP5-6 ENSG00000244513 UBA3 ARL6IP5 EOGT LMOD3 MIR3136
GH03J069008 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 32.9 +40.7 40749 6.4 BCLAF1 MYC IKZF1 ZNF600 ZNF592 ZNF223 POLR2A ZIC2 MXD4 NONO EOGT TMF1 ENSG00000244513 UBA3 ARL6IP5 HSALNG0026691 HSALNG0026690 TAFA4
GH03J069248 Promoter/Enhancer 1.7 Ensembl ENCODE CraniofacialAtlas 14 -197.1 -197096 2.8 ZNF654 ZNF600 ZNF580 ATF2 ZNF10 ZIC2 YY1 FEZF1 ZNF639 ZEB1 ENSG00000244513 TMF1 RF00017-3645 lnc-LMOD3-1 LMOD3 FRMD4B
GH03J069079 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 5.8 -35.6 -35615 19.9 BCLAF1 SP1 NCOR1 MYC ZNF600 IKZF1 JUND ZNF580 POLR2A ZNF10 ARL6IP5 UBA3 EOGT TMF1 LMOD3 HQ292135 lnc-TMF1-2 piR-61945-357
GH03J069032 Enhancer 0.6 Ensembl ENCODE 8.6 +19.2 19238 3 JUND GATA2 POLR2A CHD2 EP300 RF00017-3643 ARL6IP5 TMF1 EOGT lnc-EOGT-1 ENSG00000244513
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TMF1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TMF1

Top Transcription factor binding sites by QIAGEN in the TMF1 gene promoter:
  • AML1a
  • C/EBPbeta
  • IRF-7A
  • RSRFC4
  • SRF
  • SRF (504 AA)
  • STAT1
  • STAT3

Genomic Locations for TMF1 Gene

Latest Assembly
chr3:69,019,827-69,052,339
(GRCh38/hg38)
Size:
32,513 bases
Orientation:
Minus strand

Previous Assembly
chr3:69,068,978-69,101,484
(GRCh37/hg19 by Entrez Gene)
Size:
32,507 bases
Orientation:
Minus strand

chr3:69,068,978-69,101,484
(GRCh37/hg19 by Ensembl)
Size:
32,507 bases
Orientation:
Minus strand

Genomic View for TMF1 Gene

Genes around TMF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TMF1 Gene

Proteins for TMF1 Gene

  • Protein details for TMF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P82094-TMF1_HUMAN
    Recommended name:
    TATA element modulatory factor
    Protein Accession:
    P82094
    Secondary Accessions:
    • B7ZLJ2
    • Q17R87
    • Q59GK0

    Protein attributes for TMF1 Gene

    Size:
    1093 amino acids
    Molecular mass:
    122842 Da
    Quaternary structure:
    • Interacts with TRNP1; may regulate TRNP1 proteasomal degradation (By similarity). Component of the SNF/SWI transcription factor complexes. Interacts with RAB6A. Interacts with STAT3 and FER. Interacts with TCEB1.
    SequenceCaution:
    • Sequence=AAD54608.1; Type=Frameshift; Evidence={ECO:0000305}; Sequence=BAD92346.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for TMF1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TMF1 Gene

Post-translational modifications for TMF1 Gene

Other Protein References for TMF1 Gene

No data available for DME Specific Peptides for TMF1 Gene

Domains & Families for TMF1 Gene

Gene Families for TMF1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for TMF1 Gene

Suggested Antigen Peptide Sequences for TMF1 Gene

GenScript: Design optimal peptide antigens:
  • TMF1 protein (Q6PII6_HUMAN)
  • Androgen receptor-associated protein of 160 kDa (TMF1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P82094

UniProtKB/Swiss-Prot:

TMF1_HUMAN :
  • The Elongin BC complex binding domain is also known as BC-box with the consensus [APST]-L-x(3)-C-x(3)-[AILV].
Domain:
  • The Elongin BC complex binding domain is also known as BC-box with the consensus [APST]-L-x(3)-C-x(3)-[AILV].
genes like me logo Genes that share domains with TMF1: view

Function for TMF1 Gene

Molecular function for TMF1 Gene

UniProtKB/Swiss-Prot Function:
Potential coactivator of the androgen receptor. Mediates STAT3 degradation. May play critical roles in two RAB6-dependent retrograde transport processes: one from endosomes to the Golgi and the other from the Golgi to the ER. This protein binds the HIV-1 TATA element and inhibits transcriptional activation by the TATA-binding protein (TBP).
UniProtKB/Swiss-Prot Induction:
Down-regulated in malignant brain tumors.
GENATLAS Biochemistry:
TATA element modulatory factor (123kDa),with leucine zipper motif

Phenotypes From GWAS Catalog for TMF1 Gene

Gene Ontology (GO) - Molecular Function for TMF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 20195357
GO:0030374 nuclear receptor transcription coactivator activity IDA 10428808
GO:0050681 androgen receptor binding IPI 10428808
genes like me logo Genes that share ontologies with TMF1: view
genes like me logo Genes that share phenotypes with TMF1: view

Animal Models for TMF1 Gene

MGI Knock Outs for TMF1:
  • Tmf1 Tmf1<tm1Unir>
  • Tmf1 Tmf1<tm1.1Unir>

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TMF1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TMF1 Gene

Localization for TMF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TMF1 Gene

Cytoplasm. Nucleus. Golgi apparatus membrane. Note=Concentrated at the budding structures localized at the tips of cisternae.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TMF1 gene
Compartment Confidence
nucleus 5
golgi apparatus 5
cytosol 4
endoplasmic reticulum 3
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endosome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TMF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005783 endoplasmic reticulum IEA,IBA 21873635
GO:0005794 Golgi apparatus IBA,IDA --
genes like me logo Genes that share ontologies with TMF1: view

Pathways & Interactions for TMF1 Gene

genes like me logo Genes that share pathways with TMF1: view

Gene Ontology (GO) - Biological Process for TMF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001675 acrosome assembly IEA --
GO:0001819 positive regulation of cytokine production IEA --
GO:0007286 spermatid development IEA --
GO:0007289 spermatid nucleus differentiation IEA --
GO:0008584 male gonad development IEA --
genes like me logo Genes that share ontologies with TMF1: view

No data available for SIGNOR curated interactions for TMF1 Gene

Drugs & Compounds for TMF1 Gene

(1) Drugs for TMF1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with TMF1: view

Transcripts for TMF1 Gene

mRNA/cDNA for TMF1 Gene

2 REFSEQ mRNAs :
14 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TMF1

Alternative Splicing Database (ASD) splice patterns (SP) for TMF1 Gene

No ASD Table

Relevant External Links for TMF1 Gene

GeneLoc Exon Structure for
TMF1

Expression for TMF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TMF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TMF1 Gene

This gene is overexpressed in Brain (11.9), Pancreas (11.8), Adrenal (8.0), and Frontal cortex (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TMF1 Gene



Protein tissue co-expression partners for TMF1 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TMF1

SOURCE GeneReport for Unigene cluster for TMF1 Gene:

Hs.267632

Evidence on tissue expression from TISSUES for TMF1 Gene

  • Nervous system(4.5)
  • Liver(4.4)
  • Muscle(2.2)
  • Kidney(2)
genes like me logo Genes that share expression patterns with TMF1: view

Primer products for research

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TMF1 Gene

Orthologs for TMF1 Gene

This gene was present in the common ancestor of animals.

Orthologs for TMF1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia TMF1 29 30
  • 99.51 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia TMF1 29 30
  • 92.25 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia TMF1 29 30
  • 91.91 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Tmf1 29 16 30
  • 86 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Tmf1 29
  • 85.35 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia TMF1 30
  • 81 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia TMF1 30
  • 81 (a)
OneToOne
Chicken
(Gallus gallus)
Aves TMF1 29 30
  • 75.6 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia TMF1 30
  • 72 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii tmf1 29 30
  • 63.37 (n)
OneToOne
Dr.14269 29
Fruit Fly
(Drosophila melanogaster)
Insecta CG4557 30
  • 27 (a)
OneToOne
Species where no ortholog for TMF1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for TMF1 Gene

ENSEMBL:
Gene Tree for TMF1 (if available)
TreeFam:
Gene Tree for TMF1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TMF1: view image
Alliance of Genome Resources:
Additional Orthologs for TMF1

Paralogs for TMF1 Gene

Variants for TMF1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TMF1 Gene

SNP ID Clinical significance and condition Chr 03 pos Variation AA Info Type
rs1532918 -- p.Asp798His
rs34428015 -- p.Cys448Tyr
rs35447207 -- p.Gln430Glu
rs3736422 -- p.Gln682Arg

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TMF1 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Variation tolerance for TMF1 Gene

Residual Variation Intolerance Score: 20.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.33; 70.67% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TMF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TMF1
Leiden Open Variation Database (LOVD)
TMF1

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for TMF1 Gene

Disorders for TMF1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for TMF1 Gene - From: COP

Disorder Aliases PubMed IDs
achondrogenesis, type ia
  • acg1a
achondrogenesis
  • achondrogenesis syndrome
- elite association - COSMIC cancer census association via MalaCards
Search TMF1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TMF1

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with TMF1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TMF1 Gene

Publications for TMF1 Gene

  1. Isolation and characterization of ARA160 as the first androgen receptor N-terminal-associated coactivator in human prostate cells. (PMID: 10428808) Hsiao PW … Chang C (The Journal of biological chemistry 1999) 3 4 22
  2. Cloning and chromosomal mapping of a human immunodeficiency virus 1 "TATA" element modulatory factor. (PMID: 1409643) Garcia JA … Gaynor RB (Proceedings of the National Academy of Sciences of the United States of America 1992) 2 3 4
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 40
  4. Functional involvement of TMF/ARA160 in Rab6-dependent retrograde membrane traffic. (PMID: 17698061) Yamane J … Tsukita S (Experimental cell research 2007) 3 4
  5. A putative nuclear receptor coactivator (TMF/ARA160) associates with hbrm/hSNF2 alpha and BRG-1/hSNF2 beta and localizes in the Golgi apparatus. (PMID: 12044884) Mori K … Kato H (FEBS letters 2002) 3 4

Products for TMF1 Gene

Sources for TMF1 Gene