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

Summary

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
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
Expression: Ubiquitous expression in testis (RPKM 20.2), thyroid (RPKM 13.7) and 25 other tissues See more
Orthologs: mouse all

Genomic context

Location:: 3p14.1

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
109.20190905	current	GRCh38.p13 (GCF_000001405.39)	3	NC_000003.12 (69019827..69052333, complement)
105	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (69068978..69101484, complement)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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).
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.
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.
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)

Pathways from BioSystems

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Coregulation of Androgen receptor activity, organism-specific biosystem (from Pathway Interaction Database)
Coregulation of Androgen receptor activity, organism-specific biosystem
Coregulation of Androgen receptor activity
Intra-Golgi and retrograde Golgi-to-ER traffic, organism-specific biosystem (from REACTOME)
Intra-Golgi and retrograde Golgi-to-ER traffic, organism-specific biosystemThe mammalian Golgi complex, a central hub of both anterograde and retrograde trafficking, is a ribbon of stacked cisterna with biochemically distinct compartments (reviewed in Glick and Nakano, 2009...
Membrane Trafficking, organism-specific biosystem (from REACTOME)
Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
Retrograde transport at the Trans-Golgi-Network, organism-specific biosystem (from REACTOME)
Retrograde transport at the Trans-Golgi-Network, organism-specific biosystemThe trans-Golgi network is the docking site for retrograde cargo from the endolysosomal system and the plasma membrane. Typical cargo includes recycling resident TGN proteins such as TGOLN2 (also kn...
Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D8S2279 (e-PCR)
- UniSTS:473907

A005U17 (e-PCR)
- UniSTS:12343

SHGC-44384 (e-PCR)
- UniSTS:25165

A007F29 (e-PCR)
- UniSTS:18269

D3S4180 (e-PCR)
- UniSTS:30834

G32291 (e-PCR)
- UniSTS:116887

GDB:335751 (e-PCR)
- UniSTS:156601

SHGC-77086 (e-PCR)
- UniSTS:18900

RH48041 (e-PCR)
- UniSTS:66268

SGC44384 (e-PCR)
- UniSTS:13021

Homology

Homologs of the TMF1 gene: The TMF1 gene is conserved in chimpanzee, Rhesus monkey, dog, cow, mouse, rat, chicken, and zebrafish.
Orthologs from Annotation Pipeline: 290 organisms have orthologs with human gene TMF1
Orthologs

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
DNA binding	IEA Inferred from Electronic Annotation more info
protein binding	IPI Inferred from Physical Interaction more info	PubMed
transcription coregulator activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
Leydig cell differentiation	IEA Inferred from Electronic Annotation more info
acrosome assembly	IEA Inferred from Electronic Annotation more info
cellular response to organic cyclic compound	IEA Inferred from Electronic Annotation more info
defense response to bacterium	IEA Inferred from Electronic Annotation more info
flagellated sperm motility	IEA Inferred from Electronic Annotation more info
luteinizing hormone secretion	IEA Inferred from Electronic Annotation more info
negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
negative regulation of gene expression	IEA Inferred from Electronic Annotation more info
positive regulation of cytokine production	IEA Inferred from Electronic Annotation more info
positive regulation of testosterone secretion	IEA Inferred from Electronic Annotation more info
regulation of proteasomal protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
regulation of transcription, DNA-templated	TAS Traceable Author Statement more info	PubMed
spermatid nucleus differentiation	IEA Inferred from Electronic Annotation more info
transcription by RNA polymerase II	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info	PubMed
Golgi apparatus	IDA Inferred from Direct Assay more info
Golgi membrane	IEA Inferred from Electronic Annotation more info
cytosol	TAS Traceable Author Statement more info
endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info	PubMed
endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
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)

NM_001363879.1 → NP_001350808.1 TATA element modulatory factor isoform 2

Status: VALIDATED

Source sequence(s)

AC109587, BC143840, DC401240

Consensus CDS

CCDS87105.1

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
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

P82094

UniProtKB/TrEMBL

A0A024R370, Q6PII6

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)