Human Gene TMF1 (ENST00000398559.7_12) from GENCODE V47lift37
  Description: TATA element modulatory factor 1, transcript variant 1 (from RefSeq NM_007114.3)
Gencode Transcript: ENST00000398559.7_12
Gencode Gene: ENSG00000144747.17_15
Transcript (Including UTRs)
   Position: hg19 chr3:69,068,978-69,101,484 Size: 32,507 Total Exon Count: 17 Strand: -
Coding Region
   Position: hg19 chr3:69,072,328-69,101,237 Size: 28,910 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:69,068,978-69,101,484)mRNA (may differ from genome)Protein (1093 aa)
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-  Comments and Description Text from UniProtKB
  ID: TMF1_HUMAN
DESCRIPTION: RecName: Full=TATA element modulatory factor; Short=TMF; AltName: Full=Androgen receptor coactivator 160 kDa protein; AltName: Full=Androgen receptor-associated protein of 160 kDa;
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).
SUBUNIT: Componement of the SNF/SWI transcription factor complexes. Interacts with RAB6A. Interacts with STAT3 and FER. Interacts with TCEB1.
INTERACTION: P04150:NR3C1; NbExp=3; IntAct=EBI-949763, EBI-493507;
SUBCELLULAR LOCATION: Cytoplasm. Nucleus. Golgi apparatus membrane. Note=Concentrated at the budding structures localized at the tips of cisternae.
INDUCTION: Down-regulated in malignant brain tumors.
DOMAIN: The Elongin BC complex binding domain is also known as BC- box with the consensus [APST]-L-x(3)-C-x(3)-[AILV].
PTM: Phosphorylated by FER (By similarity).
SEQUENCE CAUTION: Sequence=AAD54608.1; Type=Frameshift; Positions=969, 971, 975, 985; Sequence=BAD92346.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 19.69 RPKM in Testis
Total median expression: 350.44 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -107.70247-0.436 Picture PostScript Text
3' UTR -717.303350-0.214 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR022092 - TMF_DNA-bd
IPR022091 - TMF_TATA-bd

Pfam Domains:
PF12325 - TATA element modulatory factor 1 TATA binding
PF12329 - TATA element modulatory factor 1 DNA binding

SCOP Domains:
90257 - Myosin rod fragments
58100 - Bacterial hemolysins

ModBase Predicted Comparative 3D Structure on P82094
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003712 transcription cofactor activity
GO:0005515 protein binding

Biological Process:
GO:0001675 acrosome assembly
GO:0001819 positive regulation of cytokine production
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0007286 spermatid development
GO:0007289 spermatid nucleus differentiation
GO:0008584 male gonad development
GO:0010629 negative regulation of gene expression
GO:0030317 flagellated sperm motility
GO:0032275 luteinizing hormone secretion
GO:0033327 Leydig cell differentiation
GO:0042742 defense response to bacterium
GO:0043066 negative regulation of apoptotic process
GO:0061136 regulation of proteasomal protein catabolic process
GO:0071407 cellular response to organic cyclic compound
GO:2000845 positive regulation of testosterone secretion

Cellular Component:
GO:0000139 Golgi membrane
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005794 Golgi apparatus
GO:0005829 cytosol
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AB209109 - Homo sapiens mRNA for TATA element modulatory factor 1 variant protein.
BC126123 - Homo sapiens TATA element modulatory factor 1, mRNA (cDNA clone MGC:161401 IMAGE:8991839), complete cds.
BC143840 - Homo sapiens TATA element modulatory factor 1, mRNA (cDNA clone MGC:177372 IMAGE:9052355), complete cds.
BC117418 - Homo sapiens TATA element modulatory factor 1, mRNA (cDNA clone MGC:151027 IMAGE:40125969), complete cds.
L01042 - Homo sapiens TATA element modulatory factor mRNA, complete cds.
AK312697 - Homo sapiens cDNA, FLJ93096.
KJ904576 - Synthetic construct Homo sapiens clone ccsbBroadEn_13970 TMF1-like gene, encodes complete protein.
AB384853 - Synthetic construct DNA, clone: pF1KB3767, Homo sapiens TMF1 gene for TATA element modulatory factor, complete cds, without stop codon, in Flexi system.
AK299020 - Homo sapiens cDNA FLJ51280 partial cds, highly similar to TATA element modulatory factor.
AK021741 - Homo sapiens cDNA FLJ11679 fis, clone HEMBA1004807.
LF207310 - JP 2014500723-A/14813: Polycomb-Associated Non-Coding RNAs.
AK096365 - Homo sapiens cDNA FLJ39046 fis, clone NT2RP7010612.
LF364582 - JP 2014500723-A/172085: Polycomb-Associated Non-Coding RNAs.
LF364583 - JP 2014500723-A/172086: Polycomb-Associated Non-Coding RNAs.
JD170446 - Sequence 151470 from Patent EP1572962.
JD472456 - Sequence 453480 from Patent EP1572962.
JD421536 - Sequence 402560 from Patent EP1572962.
JD179127 - Sequence 160151 from Patent EP1572962.
MA600159 - JP 2018138019-A/172085: Polycomb-Associated Non-Coding RNAs.
MA600160 - JP 2018138019-A/172086: Polycomb-Associated Non-Coding RNAs.
MA442887 - JP 2018138019-A/14813: Polycomb-Associated Non-Coding RNAs.
BC033771 - Homo sapiens TATA element modulatory factor 1, mRNA (cDNA clone IMAGE:3924717), partial cds.
BC008454 - Homo sapiens TATA element modulatory factor 1, mRNA (cDNA clone IMAGE:4247138), with apparent retained intron.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P82094 (Reactome details) participates in the following event(s):

R-HSA-6814091 ARL1 recruits TGN Golgin homodimers
R-HSA-6811431 RAB6:GTP binds the GARP and COG complexes, t-SNAREs and endosome-derived vesicles
R-HSA-6811440 Retrograde transport at the Trans-Golgi-Network
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-199991 Membrane Trafficking
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: ARA160, B7ZLJ2, ENST00000398559.1, ENST00000398559.2, ENST00000398559.3, ENST00000398559.4, ENST00000398559.5, ENST00000398559.6, NM_007114, P82094, Q17R87, Q59GK0, TMF1_HUMAN, uc318zup.1, uc318zup.2
UCSC ID: ENST00000398559.7_12
RefSeq Accession: NM_007114.3
Protein: P82094 (aka TMF1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.