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Aliases for TOM1 Gene

Aliases for TOM1 Gene

  • Target Of Myb1 (Chicken) 2 3
  • Target Of Myb1 (Chicken) Homolog 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 (Chicken)) is a Protein Coding gene. Among its related pathways are C-MYB transcription factor network. 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

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for TOM1 Gene

Start:
35,299,275 bp from pter
End:
35,347,994 bp from pter
Size:
48,720 bases
Orientation:
Plus strand

Genomic View for TOM1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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:
    O60784-TOM1_HUMAN
    Recommended name:
    Target of Myb protein 1
    Protein Accession:
    O60784
    Secondary Accessions:
    • B4DEL9
    • B4DNA1
    • Q5TIJ6
    • Q86X74

    Protein attributes for TOM1 Gene

    Size:
    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

    UniProtKB/Swiss-Prot:

neXtProt entry for TOM1 Gene

Proteomics data for TOM1 Gene at MOPED

Post-translational modifications for TOM1 Gene

  • Ubiquitination at Lys106, Lys116, Lys147, Lys311, Lys382, Lys385, and Lys443
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TOM1 Gene

Domains for TOM1 Gene

Protein Domains for TOM1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for TOM1 Gene

Graphical View of Domain Structure for InterPro Entry

O60784

UniProtKB/Swiss-Prot:

TOM1_HUMAN :
  • O60784
Domain:
  • Contains 1 GAT domain.
  • Contains 1 VHS domain.
Family:
  • 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

Gene Ontology (GO) - Molecular Function for TOM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 14563850
GO:0030276 clathrin binding IDA 16412388
genes like me logo Genes that share ontologies with TOM1: view
genes like me logo Genes that share phenotypes with TOM1: view

Animal Model Products

CRISPR Products

miRNA for TOM1 Gene

miRTarBase miRNAs that target TOM1

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting 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

COMPARTMENTS
Jensen Localization Image for TOM1 Gene COMPARTMENTS Subcellular localization image for TOM1 gene
Compartment Confidence
cytosol 5
endosome 5
cytoskeleton 1
vacuole 1

Gene Ontology (GO) - Cellular Components for TOM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular --
GO:0005737 cytoplasm IDA 16412388
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 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 --
GO:0006897 endocytosis NAS 10329004
GO:0015031 protein transport NAS 14613930
GO:0016197 endosomal transport TAS 10329004
genes like me logo Genes that share ontologies with TOM1: view

Compounds for TOM1 Gene

(2) Novoseek inferred chemical compound relationships for TOM1 Gene

Compound -log(P) Hits PubMed IDs
propanil 90.2 4
tyrosine 8.87 1
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:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for TOM1

Primer Products

Flow Cytometry Products

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: - -
SP6:
SP7:
SP8:

Relevant External Links for TOM1 Gene

GeneLoc Exon Structure for
TOM1
ECgene alternative splicing isoforms for
TOM1

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 (5.6) and Muscle - Skeletal (5.1).

Integrated Proteomics: protein expression 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

O60784-TOM1_HUMAN
Tissue specificity: Widely expressed. Highly expressed in skeletal muscle, heart, placenta and liver.
genes like me logo Genes that share expressions with TOM1: view

In Situ Assay 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
chimpanzee
(Pan troglodytes)
Mammalia TOM1 35
  • 99.39 (n)
  • 99.59 (a)
TOM1 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TOM1 35
  • 90.58 (n)
  • 92.28 (a)
TOM1 36
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TOM1 35
  • 89.21 (n)
  • 91.45 (a)
TOM1 36
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Gm5884 36
  • 89 (a)
OneToMany
Tom1 35
  • 85.91 (n)
  • 89.23 (a)
Tom1 16
Tom1 36
  • 85 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia TOM1 36
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TOM1 36
  • 77 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tom1 35
  • 85.43 (n)
  • 88.62 (a)
chicken
(Gallus gallus)
Aves TOM1 35
  • 75.5 (n)
  • 78.03 (a)
TOM1 36
  • 74 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TOM1 36
  • 72 (a)
OneToOne
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
zebrafish
(Danio rerio)
Actinopterygii tom1 36
  • 46 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG3529 36
  • 39 (a)
OneToMany
CG3529 37
  • 41 (a)
worm
(Caenorhabditis elegans)
Secernentea C07A12.7 36
  • 42 (a)
OneToMany
C07A12.7a 37
  • 48 (a)
C07A12.7b 37
  • 48 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HSE1 36
  • 13 (a)
OneToMany
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

ENSEMBL:
Gene Tree for TOM1 (if available)
TreeFam:
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 MAF
rs4386 -- 35,345,178(+) CTGGT(C/T)AACTT intron-variant
rs4461 -- 35,299,809(-) GGCAC(C/T)GCGAA intron-variant, utr-variant-5-prime, nc-transcript-variant
rs4462 -- 35,301,399(+) AGTAG(A/G)TCTCA intron-variant
rs4463 -- 35,301,811(-) TGTCC(-/A)GGGGA intron-variant
rs4464 -- 35,304,624(+) CAGGC(A/G)CCCGC 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

Relevant External Links for TOM1 Gene

HapMap Linkage Disequilibrium report
TOM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TOM1 Gene

Disorders for TOM1 Gene

(1) Novoseek inferred disease relationships for TOM1 Gene

Disease -log(P) Hits PubMed IDs
tumors 0 2

Relevant External Links for TOM1

Genetic Association Database (GAD)
TOM1
Human Genome Epidemiology (HuGE) Navigator
TOM1
genes like me logo Genes that share disorders with TOM1: view

No data available for UniProtKB/Swiss-Prot 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
  2. Structure of the VHS domain of human Tom1 (target of myb 1): insights into interactions with proteins and membranes. (PMID: 10985773) Misra S. … Hurley J.H. (Biochemistry 2000) 3 4 23
  3. Endofin recruits TOM1 to endosomes. (PMID: 14613930) Seet L.-F. … Hong W. (J. Biol. Chem. 2004) 3 4 23
  4. Endofin recruits clathrin to early endosomes via TOM1. (PMID: 15657082) Seet L.F. … Hong W. (J. Cell. Sci. 2005) 3 23
  5. 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

Products for TOM1 Gene

Sources for TOM1 Gene

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