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TOM1 Gene

protein-coding   GIFtS: 62
GCID: GC22P035695

Target Of Myb1 (Chicken)

(Previous name: target of myb1 (chicken) homolog)
  Search for TOM1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Target Of Myb1 (Chicken)1 2
Target Of Myb1 (Chicken) Homolog1
Target Of Myb 12
Target Of Myb Protein 12

External Ids:    HGNC: 119821   Entrez Gene: 100432   Ensembl: ENSG000001002847   OMIM: 6047005   UniProtKB: O607843   

Export aliases for TOM1 gene to outside databases

Previous GC identifers: GC22P032391 GC22P034020 GC22P018656


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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. An important paralog of this gene is STAM2.

UniProtKB/Swiss-Prot: TOM1_HUMAN, O60784
Function: May be involved in intracellular trafficking. Probable association with membranes

Gene Wiki entry for TOM1 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000022.10  NC_018933.2  NT_011520.13  
Regulatory elements:
   Regulatory transcription factor binding sites in the TOM1 gene promoter:
         Sox5   AP-1   ATF-2   c-Jun   YY1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTOM1 promoter sequence
   Search Chromatin IP Primers for TOM1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TOM1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 22q13.1   Ensembl cytogenetic band:  22q12.3   HGNC cytogenetic band: 22q13.1

TOM1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TOM1 gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22P035695:  view genomic region     (about GC identifiers)

Start:
35,695,268 bp from pter      End:
35,743,987 bp from pter
Size:
48,720 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: TOM1_HUMAN, O60784 (See protein sequence)
Recommended Name: Target of Myb protein 1  
Size: 492 amino acids; 53818 Da
Subunit: Interacts with ZFYVE16; interaction is required to target it to endosomes
2 PDB 3D structures from and Proteopedia for TOM1:
1ELK (3D)        1WRD (3D)    
Secondary accessions: B4DEL9 B4DNA1 Q5TIJ6 Q86X74
Alternative splicing: 4 isoforms:  O60784-1   O60784-2   O60784-3   O60784-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TOM1: NX_O60784

Explore proteomics data for TOM1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys106, Lys116, Lys147, Lys311, Lys382, Lys385
  • Modification sites at PhosphoSitePlus

  • See TOM1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001129201.1  NP_001129202.1  NP_001129204.1  NP_005479.1  

    ENSEMBL proteins: 
     ENSP00000476698   ENSP00000477471   ENSP00000393714   ENSP00000394466   ENSP00000385906  
     ENSP00000394944   ENSP00000397492   ENSP00000379085   ENSP00000390429   ENSP00000389789  
     ENSP00000413697   ENSP00000394924   ENSP00000402556   ENSP00000398876   ENSP00000371465  

    TOM1 Human Recombinant Protein Products:

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    Cloud-Clone Corp. Proteins for TOM1

     
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    Search eBioscience for ELISAs for TOM1 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    5 InterPro protein domains:
     IPR002014 VHS
     IPR004152 GAT
     IPR018205 VHS_subgr
     IPR008942 ENTH_VHS
     IPR014645 TOM1

    Graphical View of Domain Structure for InterPro Entry O60784

    ProtoNet protein and cluster: O60784

    2 Blocks protein domains:
    IPB002014 VHS
    IPB004152 GAT domain


    UniProtKB/Swiss-Prot: TOM1_HUMAN, O60784
    Similarity: Belongs to the TOM1 family
    Similarity: Contains 1 GAT domain
    Similarity: Contains 1 VHS domain


    Find genes that share domains with TOM1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TOM1_HUMAN, O60784
    Function: May be involved in intracellular trafficking. Probable association with membranes

         Genatlas biochemistry entry for TOM1:
    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)

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI14613930
    GO:0030276clathrin binding IDA16412388
         
    Find genes that share ontologies with TOM1           About GenesLikeMe


    Phenotypes:
         5 GenomeRNAi human phenotypes for TOM1:
     Decreased Salmonella enterica   Decreased Salmonella enterica   Decreased Salmonella enterica   Decreased Salmonella enterica  
     Decreased Salmonella-containin 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TOM1
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    miRNA
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    miRTarBase miRNAs that target TOM1:
    hsa-mir-222-3p (MIRT046596), hsa-mir-30a-5p (MIRT028407), hsa-mir-126-3p (MIRT000967)

    Block miRNA regulation of human, mouse, rat TOM1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TOM1 (see all 16):
    hsa-miR-126 hsa-miR-34c-5p hsa-miR-449b hsa-miR-449a hsa-miR-650 hsa-miR-124 hsa-miR-34a hsa-miR-2116*
    SwitchGear 3'UTR luciferase reporter plasmidTOM1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TOM1

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector: TOM1 (NM_005486)
    Sino Biological Human cDNA Clone for TOM1
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TOM1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TOM1
    Addgene plasmids for TOM1 

    Cell Line
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TOM1


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    TOM1_HUMAN, O60784: Cytoplasm (Probable). Membrane; Peripheral membrane protein (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol5
    endosome5
    cytoskeleton1
    vacuole1

    Gene Ontology (GO): Selected cellular component terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005737cytoplasm IDA16412388
    GO:0005768endosome IDA16412388
    GO:0005769early endosome IDA14613930
    GO:0005829cytosol IDA14613930

    Find genes that share ontologies with TOM1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for TOM1 About    
    See pathways by source

    SuperPathContained pathways About
    1C-MYB transcription factor network
    C-MYB transcription factor network


    1 BioSystems Pathway for TOM1
        C-MYB transcription factor network



        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TOM1
    Interactions:

        GeneGlobe Interaction Network for TOM1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for TOM1 (O607841, 2, 3 ENSP000004136974) via UniProtKB, MINT, STRING, and/or I2D (see all 36)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TOM1L1O756741, 2, 3, ENSP000004089584EBI-74634,EBI-712991 MINT-7980618 MINT-7980599 I2D: score=1 STRING: ENSP00000408958
    ZFYVE16Q7Z3T81, 3, ENSP000003371594EBI-74634,EBI-298055 I2D: score=5 STRING: ENSP00000337159
    ZNF512BQ96KM62, 3MINT-60835 I2D: score=2 
    HGSO149642, 3, ENSP000003312014MINT-58566 I2D: score=1 STRING: ENSP00000331201
    IL1R1P147783, ENSP000002339464I2D: score=1 STRING: ENSP00000233946
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006886intracellular protein transport IEA--
    GO:0006897endocytosis NAS10329004
    GO:0015031protein transport NAS14613930
    GO:0016197endosomal transport TAS10329004

    Find genes that share ontologies with TOM1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for TOM1

    2 Novoseek inferred chemical compound relationships for TOM1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    propanil 90.2 4 10329004 (2), 14563850 (1), 14613930 (1)
    tyrosine 8.87 1 10329004 (1)



    Find genes that share compounds with TOM1           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for TOM1 gene (4 alternative transcripts): 
    NM_001135729.1  NM_001135730.1  NM_001135732.1  NM_005488.2  

    Unigene Cluster for TOM1:

    Target of myb1 (chicken)
    Hs.474705  [show with all ESTs]
    Unigene Representative Sequence: AK097926
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 20):
    ENST00000608749 ENST00000608674 ENST00000456128 ENST00000449058 ENST00000404284(uc003ano.3)
    ENST00000465529 ENST00000487670 ENST00000439512 ENST00000424387 ENST00000395736
    ENST00000449508 ENST00000443206 ENST00000497448 ENST00000491987 ENST00000492723
    ENST00000411850(uc011amj.2 uc003anp.3 uc003ann.3 uc011amk.2)
    ENST00000425375(uc011aml.2) ENST00000436462
    miRNA
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    Block miRNA regulation of human, mouse, rat TOM1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TOM1 (see all 16):
    hsa-miR-126 hsa-miR-34c-5p hsa-miR-449b hsa-miR-449a hsa-miR-650 hsa-miR-124 hsa-miR-34a hsa-miR-2116*
    SwitchGear 3'UTR luciferase reporter plasmidTOM1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TOM1
    Clone
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    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: TOM1 (NM_005486)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TOM1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TOM1
    Addgene plasmids for TOM1 
    Primer
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    OriGene qPCR primer pairs and template standards for TOM1
    OriGene qSTAR qPCR primer pairs in human, mouse for TOM1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat TOM1
      QuantiTect SYBR Green Assays in human, mouse, rat TOM1
      QuantiFast Probe-based Assays in human, mouse, rat TOM1

    Additional mRNA sequence: 

    AF040251.1 AJ006973.1 AK026576.1 AK090723.1 AK091958.1 AK097066.1 AK097926.1 AK293694.1 
    AK295918.1 AK296670.1 AK297827.1 AK314522.1 AY358980.1 BC040006.1 BC046151.1 CR456595.1 
    NR_024194.1 NR_024195.1 

    Selected DOTS entries (see all 33):

    DT.117662  DT.99937389  DT.120669866  DT.100879921  DT.100879933  DT.100879929  DT.95242925  DT.100879939 
    DT.120669875  DT.120669870  DT.100028876  DT.100879925  DT.100879940  DT.100879920  DT.100879930  DT.92431542 
    DT.100879937  DT.100879938  DT.120669854  DT.120669896  DT.91979131  DT.100801815  DT.100879934  DT.100879936 

    Selected AceView cDNA sequences (see all 354):

    NM_005488 AU076539 BX361023 F13133 CR621107 BM979914 CR605275 BX430436 
    AI610200 BX331644 BM911371 BQ051481 BC040006 CB215604 AI224382 BX407064 
    H55342 BM695918 BU553411 BX368813 CF139315 BM547582 BX371166 BM544116 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for TOM1 (see all 8)    About this scheme

    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:                          -     -                                                                                                                     


    ECgene alternative splicing isoforms for TOM1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    TOM1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCTTTGGCTG
    TOM1 Expression
    About this image


    TOM1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Bone (Muscoskeletal System)
             Bone Marrow
    TOM1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TOM1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.474705

    UniProtKB/Swiss-Prot: TOM1_HUMAN, O60784
    Tissue specificity: Widely expressed. Highly expressed in skeletal muscle, heart, placenta and liver

        Custom PCR Arrays for TOM1
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    QuantiFast Probe-based Assays in human, mouse, rat TOM1
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TOM1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals and fungi.

    Orthologs for TOM1 gene from Selected species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tom11 , 5 target of myb1 homolog (chicken)1, 5 85.91(n)1
    89.23(a)1
      8 (35.57 cM)5
    219681  NM_001136259.11  NP_001129731.11 
     750336865 
    chicken
    (Gallus gallus)
    Aves TOM11 target of myb1 75.5(n)
    78.03(a)
      396049  NM_205144.2  NP_990475.1 
    lizard
    (Anolis carolinensis)
    Reptilia TOM16
    target of myb1 (chicken)
    72(a)
    1 ↔ 1
    5(21440266-21469371)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.150402 Transcribed sequence with weak similarity to protein more 76.53(n)    CF783101.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BC056566.12   -- 78.82(n)    BC056566.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG35293   -- 41(a)   67B5   --
    worm
    (Caenorhabditis elegans)
    Secernentea C07A12.7b3   -- 48(a)
    (best of 2)
      X(4553182-4556331)   --
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes HSE16
    Subunit of the endosomal Vps27p-Hse1p complex requ...
    13(a)
    1 → many
    VIII(102612-103970) YHL002W


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TOM1 gene
    STAM22  TOM1L22  TOM1L12  STAM2  
    6 SIMAP similar genes for TOM1 using alignment to 12 protein entries:     TOM1_HUMAN (see all proteins):
    TOM1L2    TOM1L1    GGA3    GGA2    HGS    GGA1

    Find genes that share paralogs with TOM1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for TOM1 (see all 1177)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 22 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1379706681,2
    --18654374(+) GTCCCA/CCCTAC 1 -- us2k10--------
    rs1387341,2
    C--18659433(+) TTTTT-/T/TTT 
            
    GAGAC
    6 -- int1 trp31NA 2
    rs769514101,2
    C,F--35693273(+) AAGAGG/TCTGAA 1 -- us2k11Minor allele frequency- T:0.50WA 2
    rs1438589751,2
    --35693340(+) CTGTAA/CGCCAG 1 -- us2k10--------
    rs671259421,2
    C--35693376(+) TTTAAAAAT/-  
            
    AAATA
    1 -- us2k11Minor allele frequency- -:0.50CSA 2
    rs1486163151,2
    --35693417(+) TTTCAA/GTAGCT 1 -- us2k10--------
    rs117052241,2
    C,H--35693507(+) gcagtA/Ggtgca 1 -- us2k11Minor allele frequency- G:0.00CSA 1
    rs1880629851,2
    --35693535(+) GCTCCA/GCCTAC 1 -- us2k10--------
    rs1387201,2
    C--35693591(+) ACCAC-/GGCGC 
     CCACCAC
    CACGC
    1 -- us2k11Minor allele frequency- GGCGCCCACCAC:0.00NA 2
    rs1387211,2
    C,F,A,H--35693744(-) TGGCTG/CACACC 1 -- us2k13Minor allele frequency- C:0.17NA 6

    HapMap Linkage Disequilibrium report for TOM1 (35695268 - 35743987 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for TOM1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv3610CNV Insertion18451855
    nsv914995CNV Loss21882294
    nsv914994CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TOM1
    DNA2.0 Custom Variant and Variant Library Synthesis for TOM1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 604700    OMIM disorders: --


    Find genes that share disorders with TOM1           About GenesLikeMe

    1 Novoseek inferred disease relationship for TOM1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 0 3 15056867 (2)

    Genetic Association Database (GAD): TOM1
    Human Genome Epidemiology (HuGE) Navigator: TOM1 (1 document)

    Export disorders for TOM1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for TOM1 gene, integrated from 10 sources (see all 58):
    (articles sorted by number of sources associating them with TOM1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. TOM1 genes map to human chromosome 22q13.1 and mouse chromosome 8C1 and encode proteins similar to the endosomal proteins HGS and STAM. (PubMed id 10329004)1, 2, 3, 9 Seroussi E....Dumanski J.P. (Genomics 1999)
    2. Endofin recruits TOM1 to endosomes. (PubMed id 14613930)1, 2, 9 Seet L.-F.... Hong W. (J. Biol. Chem. 2004)
    3. Structure of the VHS domain of human Tom1 (target of myb 1): insights into interactions with proteins and membranes. (PubMed id 10985773)1, 2, 9 Misra S.... Hurley J.H. (Biochemistry 2000)
    4. Gene-based SNP mapping of a psychotic bipolar affective disorder linkage region on 22q12.3: association with HMG2L1 and TOM1. (PubMed id 17671966)1, 4 Potash J.B....McMahon F.J. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2008)
    5. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    7. A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802)1, 2 Collins J.E.... Dunham I. (Genome Biol. 2004)
    8. Tollip and Tom1 form a complex and recruit ubiquitin-conjugated proteins onto early endosomes. (PubMed id 15047686)1, 3 Katoh Y....Nakayama K. (J. Biol. Chem. 2004)
    9. The DNA sequence of human chromosome 22. (PubMed id 10591208)1, 2 Dunham I.... Wright H. (Nature 1999)
    10. Endofin recruits clathrin to early endosomes via TOM1. (PubMed id 15657082)1, 9 Seet L.F. and Hong W. (J. Cell. Sci. 2005)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 10043 HGNC: 11982 AceView: TOM1 Ensembl:ENSG00000100284 euGenes: HUgn10043
    ECgene: TOM1 H-InvDB: TOM1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for TOM1 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TOM1 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TOM1 gene:
    Search GeneIP for patents involving TOM1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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