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Tfeb transcription factor EB [ Mus musculus (house mouse) ]

Gene ID: 21425, updated on 27-Nov-2024

Summary

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Official Symbol
Tfebprovided by MGI
Official Full Name
transcription factor EBprovided by MGI
Primary source
MGI:MGI:103270
See related
Ensembl:ENSMUSG00000023990 AllianceGenome:MGI:103270
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Tcfeb; bHLHe35
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein heterodimerization activity. Involved in several processes, including defense response to Gram-negative bacterium; embryonic placenta development; and positive regulation of transcription by RNA polymerase II. Acts upstream of or within lysosome organization. Located in cytoplasm. Part of transcription regulator complex. Colocalizes with nucleus. Is expressed in several structures, including cardiovascular system; central nervous system; early conceptus; genitourinary system; and gut gland. Orthologous to human TFEB (transcription factor EB). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in spleen adult (RPKM 26.0), colon adult (RPKM 13.7) and 21 other tissues See more
Orthologs
human all
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Genomic context

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See Tfeb in Genome Data Viewer
Location:
17 C; 17 23.99 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (48047962..48103341)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (47737037..47792416)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_42724 Neighboring gene predicted gene, 46579 Neighboring gene STARR-positive B cell enhancer ABC_E10960 Neighboring gene STARR-positive B cell enhancer ABC_E5617 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:47876786-47876895 Neighboring gene progastricsin (pepsinogen C) Neighboring gene STARR-positive B cell enhancer ABC_E2491 Neighboring gene STARR-positive B cell enhancer ABC_E5618 Neighboring gene STARR-seq mESC enhancer starr_42729 Neighboring gene MyoD family inhibitor Neighboring gene predicted gene, 25201

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. The Ragulator complex serves as a substrate-specific mTORC1 scaffold in regulating the nuclear translocation of transcription factor EB. Kimura T, et al. J Biol Chem, 2022 Mar. PMID 35183507, Free PMC Article
  2. Endothelial TFEB (Transcription Factor EB) Positively Regulates Postischemic Angiogenesis. Fan Y, et al. Circ Res, 2018 Mar 30. PMID 29467198, Free PMC Article
  3. Dynamic MTORC1-TFEB feedback signaling regulates hepatic autophagy, steatosis and liver injury in long-term nutrient oversupply. Zhang H, et al. Autophagy, 2018. PMID 30044707, Free PMC Article
  4. Lysosomal Ca(2+) release-facilitated TFEB nuclear translocation alleviates ischemic brain injury by attenuating autophagic/lysosomal dysfunction in neurons. Lei Q, et al. Sci Rep, 2024 Oct 22. PMID 39438678, Free PMC Article
  5. Sustained alternate-day fasting potentiates doxorubicin cardiotoxicity. Ozcan M, et al. Cell Metab, 2023 Jun 6. PMID 36868222, Free PMC Article

See all (233) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The Estrogen Receptor-Related Orphan Receptors Regulate Autophagy through TFEB.
    Title: The Estrogen Receptor-Related Orphan Receptors Regulate Autophagy through TFEB.
  2. Lysosomal Ca[2+] release-facilitated TFEB nuclear translocation alleviates ischemic brain injury by attenuating autophagic/lysosomal dysfunction in neurons.
    Title: Lysosomal Ca(2+) release-facilitated TFEB nuclear translocation alleviates ischemic brain injury by attenuating autophagic/lysosomal dysfunction in neurons.
  3. TFEB activation hallmarks antigenic experience of B lymphocytes and directs germinal center fate decisions.
    Title: TFEB activation hallmarks antigenic experience of B lymphocytes and directs germinal center fate decisions.
  4. TFEB alleviates periodontitis by activating autophagy and inhibiting inflammation.
    Title: TFEB alleviates periodontitis by activating autophagy and inhibiting inflammation.
  5. TFEB safeguards trophoblast syncytialization in humans and mice.
    Title: TFEB safeguards trophoblast syncytialization in humans and mice.
  6. A potential early-atheroprotective target: Irgm1 mediates lymphangiogenesis through LEC autophagy by Tfeb translocation.
    Title: A potential early-atheroprotective target: Irgm1 mediates lymphangiogenesis through LEC autophagy by Tfeb translocation.
  7. Muscle-bone cross-talk through the FNIP1-TFEB-IGF2 axis is associated with bone metabolism in human and mouse.
    Title: Muscle-bone cross-talk through the FNIP1-TFEB-IGF2 axis is associated with bone metabolism in human and mouse.
  8. Transcription factor EB modulates the homeostasis of reactive oxygen species in intestinal epithelial cells to alleviate inflammatory bowel disease.
    Title: Transcription factor EB modulates the homeostasis of reactive oxygen species in intestinal epithelial cells to alleviate inflammatory bowel disease.
  9. TFEB regulates dendritic cell antigen presentation to modulate immune balance in asthma.
    Title: TFEB regulates dendritic cell antigen presentation to modulate immune balance in asthma.
  10. Erbin accelerates TFEB-mediated lysosome biogenesis and autophagy and alleviates sepsis-induced inflammatory responses and organ injuries.
    Title: Erbin accelerates TFEB-mediated lysosome biogenesis and autophagy and alleviates sepsis-induced inflammatory responses and organ injuries.
Submit: New GeneRIF Correction See all GeneRIFs (127)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

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 MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
  
enables protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in antibacterial innate immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in antibacterial innate immune response ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in autophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to amino acid starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to amino acid starvation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cellular response to starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to starvation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in defense response to Gram-negative bacterium IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in embryonic placenta development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in humoral immune response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in lysosome localization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within lysosome organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in lysosome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in lysosome organization ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of autophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of autophagy ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in lysosomal membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
colocalizes_with nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of transcription regulator complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
transcription factor EB

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_001161722.2 → NP_001155194.1  transcription factor EB

    See identical proteins and their annotated locations for NP_001155194.1

    Status: VALIDATED

    Source sequence(s)
    AC113536, AC124830
    Consensus CDS
    CCDS50133.1
    UniProtKB/Swiss-Prot
    Q9R210
    UniProtKB/TrEMBL
    Q3U327
    Related
    ENSMUSP00000084151.4, ENSMUST00000086932.10
    Conserved Domains (3) summary
    pfam11851
    Location:320 → 472
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:4 → 161
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus
    cd18927
    Location:225 → 315
    bHLHzip_TFEB; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in transcription factor EB (TFEB) and similar proteins

  2. NM_001161723.2 → NP_001155195.1  transcription factor EB

    See identical proteins and their annotated locations for NP_001155195.1

    Status: VALIDATED

    Source sequence(s)
    AC113536, AC124830
    Consensus CDS
    CCDS50133.1
    UniProtKB/Swiss-Prot
    Q9R210
    UniProtKB/TrEMBL
    Q3U327
    Related
    ENSMUSP00000108913.2, ENSMUST00000113288.8
    Conserved Domains (3) summary
    pfam11851
    Location:320 → 472
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:4 → 161
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus
    cd18927
    Location:225 → 315
    bHLHzip_TFEB; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in transcription factor EB (TFEB) and similar proteins

  3. NM_001432178.1 → NP_001419107.1  transcription factor EB

    Status: VALIDATED

    Source sequence(s)
    AC113536, AC124830
    UniProtKB/Swiss-Prot
    Q9R210

  4. NM_001432179.1 → NP_001419108.1  transcription factor EB

    Status: VALIDATED

    Source sequence(s)
    AC113536, AC124830
    UniProtKB/Swiss-Prot
    Q9R210

  5. NM_001432180.1 → NP_001419109.1  transcription factor EB

    Status: VALIDATED

    Source sequence(s)
    AC113536, AC124830
    UniProtKB/Swiss-Prot
    Q9R210

  6. NM_001432181.1 → NP_001419110.1  transcription factor EB

    Status: VALIDATED

    Source sequence(s)
    AC113536, AC124830
    UniProtKB/Swiss-Prot
    Q9R210

  7. NM_011549.4 → NP_035679.4  transcription factor EB

    Status: VALIDATED

    Source sequence(s)
    AC113536
    Consensus CDS
    CCDS28856.1
    UniProtKB/Swiss-Prot
    Q9R210
    Related
    ENSMUSP00000024786.8, ENSMUST00000024786.14

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    48047962..48103341
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006524007.5 → XP_006524070.1  transcription factor EB isoform X1

    Conserved Domains (3) summary
    pfam11851
    Location:320 → 472
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:4 → 161
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus
    cd18927
    Location:225 → 315
    bHLHzip_TFEB; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in transcription factor EB (TFEB) and similar proteins

  2. XM_006524006.4 → XP_006524069.1  transcription factor EB isoform X1

    Conserved Domains (3) summary
    pfam11851
    Location:320 → 472
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:4 → 161
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus
    cd18927
    Location:225 → 315
    bHLHzip_TFEB; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in transcription factor EB (TFEB) and similar proteins

  3. XM_006524004.1 → XP_006524067.1  transcription factor EB isoform X2

    UniProtKB/TrEMBL
    Q3U327
    Conserved Domains (3) summary
    pfam11851
    Location:355 → 507
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:39 → 196
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus
    cd18927
    Location:260 → 350
    bHLHzip_TFEB; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in transcription factor EB (TFEB) and similar proteins

  4. XM_006524003.4 → XP_006524066.2  transcription factor EB isoform X1

    See identical proteins and their annotated locations for XP_006524066.2

    UniProtKB/Swiss-Prot
    Q9R210
    UniProtKB/TrEMBL
    Q3U327
    Conserved Domains (3) summary
    pfam11851
    Location:320 → 472
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:4 → 161
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus
    cd18927
    Location:225 → 315
    bHLHzip_TFEB; basic Helix-Loop-Helix-zipper (bHLHzip) domain found in transcription factor EB (TFEB) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9R210.2 GenPept UniProtKB/Swiss-Prot:Q9R210

Gene LinkOut

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