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Aliases for TOM1 Gene

Aliases for TOM1 Gene

  • Target Of Myb1 Membrane Trafficking Protein 2 3 5
  • Target Of Myb1 (Chicken) Homolog 2
  • Target Of Myb1 (Chicken) 2

External Ids for TOM1 Gene

Previous GeneCards Identifiers for TOM1 Gene

  • GC22P032391
  • GC22P034020
  • GC22P035695
  • GC22P018656

Summaries for TOM1 Gene

Entrez Gene Summary for TOM1 Gene

  • This gene was identified as a target of the v-myb oncogene. The encoded protein shares its N-terminal domain in common with proteins associated with vesicular trafficking at the endosome. It is recruited to the endosomes by its interaction with endofin. Several alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2008]

GeneCards Summary for TOM1 Gene

TOM1 (Target Of Myb1 Membrane Trafficking Protein) is a Protein Coding gene. Among its related pathways are C-MYB transcription factor network. GO annotations related to this gene include clathrin binding. An important paralog of this gene is TOM1L1.

UniProtKB/Swiss-Prot for TOM1 Gene

  • May be involved in intracellular trafficking. Probable association with membranes.

Gene Wiki entry for TOM1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TOM1 Gene

Genomics for TOM1 Gene

Regulatory Elements for TOM1 Gene

Enhancers for TOM1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TOM1 on UCSC Golden Path with GeneCards custom track

Promoters for TOM1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TOM1 on UCSC Golden Path with GeneCards custom track

Genomic Location for TOM1 Gene

35,299,275 bp from pter
35,347,994 bp from pter
48,720 bases
Plus strand

Genomic View for TOM1 Gene

Genes around TOM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TOM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TOM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TOM1 Gene

Proteins for TOM1 Gene

  • Protein details for TOM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Target of Myb protein 1
    Protein Accession:
    Secondary Accessions:
    • B4DEL9
    • B4DNA1
    • Q5TIJ6
    • Q86X74

    Protein attributes for TOM1 Gene

    492 amino acids
    Molecular mass:
    53818 Da
    Quaternary structure:
    • Interacts with ZFYVE16; interaction is required to target it to endosomes.

    Three dimensional structures from OCA and Proteopedia for TOM1 Gene

    Alternative splice isoforms for TOM1 Gene


neXtProt entry for TOM1 Gene

Proteomics data for TOM1 Gene at MOPED

Post-translational modifications for TOM1 Gene

  • Ubiquitination at Lys 106, Lys 116, Lys 147, Lys 311, Lys 385, and Lys 443
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TOM1 Gene

Domains & Families for TOM1 Gene

Protein Domains for TOM1 Gene


Suggested Antigen Peptide Sequences for TOM1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 GAT domain.
  • Belongs to the TOM1 family.
  • Contains 1 GAT domain.
  • Contains 1 VHS domain.
  • Belongs to the TOM1 family.
genes like me logo Genes that share domains with TOM1: view

No data available for Gene Families for TOM1 Gene

Function for TOM1 Gene

Molecular function for TOM1 Gene

GENATLAS Biochemistry:
target of mybl (chicken ortholog),ubiquitous with highest expression in skeletal muscle,placenta,heart,liver,involved in the control of vesicular trafficking to lysosome (suppression of cell growth)
UniProtKB/Swiss-Prot Function:
May be involved in intracellular trafficking. Probable association with membranes.
genes like me logo Genes that share phenotypes with TOM1: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TOM1 Gene

Localization for TOM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TOM1 Gene

Cytoplasm. Membrane; Peripheral membrane protein.

Subcellular locations from

Jensen Localization Image for TOM1 Gene COMPARTMENTS Subcellular localization image for TOM1 gene
Compartment Confidence
cytosol 5
endosome 5
extracellular 5
cytoskeleton 2
plasma membrane 2
vacuole 2
golgi apparatus 1
lysosome 1

Gene Ontology (GO) - Cellular Components for TOM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005768 endosome IDA 16412388
GO:0005769 early endosome IDA 14613930
GO:0005829 cytosol IDA 14613930
genes like me logo Genes that share ontologies with TOM1: view

Pathways & Interactions for TOM1 Gene

genes like me logo Genes that share pathways with TOM1: view

Pathways by source for TOM1 Gene

1 BioSystems pathway for TOM1 Gene

Gene Ontology (GO) - Biological Process for TOM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
genes like me logo Genes that share ontologies with TOM1: view

No data available for SIGNOR curated interactions for TOM1 Gene

Drugs & Compounds for TOM1 Gene

(1) Drugs for TOM1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for TOM1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with TOM1: view

Transcripts for TOM1 Gene

Unigene Clusters for TOM1 Gene

Target of myb1 (chicken):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TOM1 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17a · 17b
SP1: - - - - -
SP2: - - - - - - -
SP3: - - - - - - -
SP4: - - -
SP5: - -

Relevant External Links for TOM1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for TOM1 Gene

mRNA expression in normal human tissues for TOM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TOM1 Gene

This gene is overexpressed in Whole Blood (x5.6) and Muscle - Skeletal (x5.1).

Protein differential expression in normal tissues from HIPED for TOM1 Gene

This gene is overexpressed in Saliva (14.2), Lavage (10.6), and Bone marrow stromal cell (8.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TOM1 Gene

SOURCE GeneReport for Unigene cluster for TOM1 Gene Hs.474705

mRNA Expression by UniProt/SwissProt for TOM1 Gene

Tissue specificity: Widely expressed. Highly expressed in skeletal muscle, heart, placenta and liver.
genes like me logo Genes that share expression patterns with TOM1: view

Protein tissue co-expression partners for TOM1 Gene

Primer Products

Orthologs for TOM1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for TOM1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia TOM1 35
  • 90.58 (n)
  • 92.28 (a)
TOM1 36
  • 92 (a)
(Canis familiaris)
Mammalia TOM1 35
  • 89.21 (n)
  • 91.45 (a)
TOM1 36
  • 91 (a)
(Mus musculus)
Mammalia Tom1 35
  • 85.91 (n)
  • 89.23 (a)
Tom1 16
Gm5884 36
  • 89 (a)
Tom1 36
  • 85 (a)
(Pan troglodytes)
Mammalia TOM1 35
  • 99.39 (n)
  • 99.59 (a)
TOM1 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Tom1 35
  • 85.43 (n)
  • 88.62 (a)
(Monodelphis domestica)
Mammalia TOM1 36
  • 80 (a)
(Ornithorhynchus anatinus)
Mammalia TOM1 36
  • 77 (a)
(Gallus gallus)
Aves TOM1 35
  • 75.5 (n)
  • 78.03 (a)
TOM1 36
  • 74 (a)
(Anolis carolinensis)
Reptilia TOM1 36
  • 72 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.15040 35
tom1 35
  • 67.56 (n)
  • 70.78 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9213 35
(Danio rerio)
Actinopterygii tom1 36
  • 46 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG3529 37
  • 41 (a)
CG3529 36
  • 39 (a)
(Caenorhabditis elegans)
Secernentea C07A12.7a 37
  • 48 (a)
C07A12.7b 37
  • 48 (a)
C07A12.7 36
  • 42 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HSE1 36
  • 13 (a)
Species with no ortholog for TOM1:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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)
  • wheat (Triticum aestivum)

Evolution for TOM1 Gene

Gene Tree for TOM1 (if available)
Gene Tree for TOM1 (if available)

Paralogs for TOM1 Gene

Paralogs for TOM1 Gene

genes like me logo Genes that share paralogs with TOM1: view

Variants for TOM1 Gene

Sequence variations from dbSNP and Humsavar for TOM1 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs34371697 - 35,330,371(+) GAGCC(A/G)TGCAG nc-transcript-variant, reference, missense
rs11558473 - 35,323,062(+) GCACC(A/G)CTTCC nc-transcript-variant, reference, missense, utr-variant-5-prime
rs4386 -- 35,345,178(+) CTGGT(C/T)AACTT intron-variant, utr-variant-3-prime
rs4461 -- 35,299,809(-) GGCAC(C/T)GCGAA intron-variant, nc-transcript-variant, upstream-variant-2KB, utr-variant-5-prime
rs4462 -- 35,301,399(+) AGTAG(A/G)TCTCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TOM1 Gene

Variant ID Type Subtype PubMed ID
nsv914994 CNV Loss 21882294
nsv914995 CNV Loss 21882294
nsv3610 CNV Insertion 18451855

Variation tolerance for TOM1 Gene

Residual Variation Intolerance Score: 49.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.38; 81.70% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for TOM1 Gene

Disorders for TOM1 Gene

Relevant External Links for TOM1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for TOM1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TOM1 Gene

Publications for TOM1 Gene

  1. TOM1 genes map to human chromosome 22q13.1 and mouse chromosome 8C1 and encode proteins similar to the endosomal proteins HGS and STAM. (PMID: 10329004) Seroussi E. … Dumanski J.P. (Genomics 1999) 2 3 4 23 67
  2. The emerging role of VHS domain-containing Tom1, Tom1L1 and Tom1L2 in membrane trafficking. (PMID: 20604899) Wang T. … Hong W. (Traffic 2010) 2 3
  3. miR-126 is downregulated in cystic fibrosis airway epithelial cells and regulates TOM1 expression. (PMID: 20083669) Oglesby I.K. … Greene C.M. (J. Immunol. 2010) 3 23
  4. Endofin recruits clathrin to early endosomes via TOM1. (PMID: 15657082) Seet L.F. … Hong W. (J. Cell. Sci. 2005) 3 23
  5. Tollip and Tom1 form a complex and recruit ubiquitin-conjugated proteins onto early endosomes. (PMID: 15047686) Katoh Y. … Nakayama K. (J. Biol. Chem. 2004) 2 3

Products for TOM1 Gene

Sources for TOM1 Gene