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Tom1 target of myb1 trafficking protein [ Mus musculus (house mouse) ]

Gene ID: 21968, updated on 5-Mar-2024

Summary

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Official Symbol
Tom1provided by MGI
Official Full Name
target of myb1 trafficking proteinprovided by MGI
Primary source
MGI:MGI:1338026
See related
Ensembl:ENSMUSG00000042870 AllianceGenome:MGI:1338026
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
Summary
Predicted to enable clathrin binding activity. Predicted to be involved in signal transduction. Predicted to act upstream of or within protein transport. Predicted to be located in cytosol and early endosome. Predicted to be active in endosome and membrane. Is expressed in several structures, including brain and intestine. Human ortholog(s) of this gene implicated in primary immunodeficiency disease. Orthologous to human TOM1 (target of myb1 membrane trafficking protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 30.9), heart adult (RPKM 26.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Tom1 in Genome Data Viewer
Location:
8 C1; 8 35.57 cM
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (75760326..75796749)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (75033642..75070121)

Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53440 Neighboring gene STARR-seq mESC enhancer starr_21917 Neighboring gene STARR-positive B cell enhancer ABC_E6664 Neighboring gene HMG box domain containing 4 Neighboring gene STARR-seq mESC enhancer starr_21922 Neighboring gene STARR-seq mESC enhancer starr_21923 Neighboring gene STARR-positive B cell enhancer ABC_E560 Neighboring gene STARR-seq mESC enhancer starr_21925 Neighboring gene STARR-seq mESC enhancer starr_21926 Neighboring gene dpy-30 homolog pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E8248 Neighboring gene heme oxygenase 1

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. TOM1 Regulates Neuronal Accumulation of Amyloid-β Oligomers by FcγRIIb2 Variant in Alzheimer's Disease. Gwon Y, et al. J Neurosci, 2018 Oct 17. PMID 30185465, Free PMC Article
  2. TOM1 genes map to human chromosome 22q13.1 and mouse chromosome 8C1 and encode proteins similar to the endosomal proteins HGS and STAM. Seroussi E, et al. Genomics, 1999 May 1. PMID 10329004
  3. Tom1, a VHS domain-containing protein, interacts with tollip, ubiquitin, and clathrin. Yamakami M, et al. J Biol Chem, 2003 Dec 26. PMID 14563850
  4. Recruitment of clathrin onto endosomes by the Tom1-Tollip complex. Katoh Y, et al. Biochem Biophys Res Commun, 2006 Mar 3. PMID 16412388
  5. Mfn2 ubiquitination by PINK1/parkin gates the p97-dependent release of ER from mitochondria to drive mitophagy. McLelland GL, et al. Elife, 2018 Apr 20. PMID 29676259, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Study shows that TOM1 regulates neuronal accumulation of amyloid-beta oligomers by FcgammaRIIb2 variant in Alzheimer's Disease (AD). Study provides a molecular mechanism responsible for neuronal uptake of pathogenic Abeta found in AD.
    Title: TOM1 Regulates Neuronal Accumulation of Amyloid-β Oligomers by FcγRIIb2 Variant in Alzheimer's Disease.
  2. a Tom1-Tollip complex functions as a factor that links polyubiquitinated proteins to clathrin
    Title: Tom1, a VHS domain-containing protein, interacts with tollip, ubiquitin, and clathrin.
  3. These results indicate that, in conjunction with Tollip, Tom1 family proteins play an important role in recruiting clathrin onto endosomes and suggest that they modulate endosomal functions.
    Title: Recruitment of clathrin onto endosomes by the Tom1-Tollip complex.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

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 clathrin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables clathrin binding ISO
Inferred from Sequence Orthology
more info
  
enables clathrin heavy chain binding ISO
Inferred from Sequence Orthology
more info
  
enables myosin VI binding ISO
Inferred from Sequence Orthology
more info
  
enables phosphatidylinositol binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatidylinositol-5-phosphate binding ISO
Inferred from Sequence Orthology
more info
  
enables polyubiquitin modification-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in autophagosome-lysosome fusion ISO
Inferred from Sequence Orthology
more info
  
involved_in endosomal transport ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of autophagosome maturation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of endosome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in substrate localization to autophagosome ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in early endosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endosome ISO
Inferred from Sequence Orthology
more info
  
located_in endosome membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
target of Myb1 membrane trafficking protein
Names
target of Myb protein 1
target of myb1 homolog

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_001136259.2 → NP_001129731.1  target of Myb1 membrane trafficking protein isoform 2

    See identical proteins and their annotated locations for NP_001129731.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) represents the longer transcript and encodes the longer protein (isoform 2).
    Source sequence(s)
    AL603864
    Consensus CDS
    CCDS52600.1
    UniProtKB/TrEMBL
    Q3UDC3
    Related
    ENSMUSP00000077891.6, ENSMUST00000078847.13
    Conserved Domains (2) summary
    cd03565
    Location:12 → 152
    VHS_Tom1; VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of ...
    cd14236
    Location:214 → 308
    GAT_TOM1; GAT domain found in target of Myb protein 1 (Tom1)

  2. NM_001424946.1 → NP_001411875.1  target of Myb1 membrane trafficking protein isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL603864

  3. NM_001424947.1 → NP_001411876.1  target of Myb1 membrane trafficking protein isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL603864

  4. NM_001424948.1 → NP_001411877.1  target of Myb1 membrane trafficking protein isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL603864

  5. NM_001424949.1 → NP_001411878.1  target of Myb1 membrane trafficking protein isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL603864

  6. NM_001424950.1 → NP_001411879.1  target of Myb1 membrane trafficking protein isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL603864

  7. NM_011622.4 → NP_035752.1  target of Myb1 membrane trafficking protein isoform 1

    See identical proteins and their annotated locations for NP_035752.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) lacks an alternate in-frame exon in the coding region compared to variant 2. The resulting protein (isoform 1) is shorter but has the same N- and C-termini compared to isoform 2.
    Source sequence(s)
    AL603864
    Consensus CDS
    CCDS52601.1
    UniProtKB/Swiss-Prot
    O88746, Q3V4C6, Q9D120
    UniProtKB/TrEMBL
    Q561M4
    Related
    ENSMUSP00000130854.2, ENSMUST00000165630.3
    Conserved Domains (2) summary
    cd03565
    Location:12 → 152
    VHS_Tom1; VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of ...
    cd14236
    Location:214 → 308
    GAT_TOM1; GAT domain found in target of Myb protein 1 (Tom1)

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_000074.7 Reference GRCm39 C57BL/6J

    Range
    75760326..75796749
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O88746.1 GenPept UniProtKB/Swiss-Prot:O88746

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