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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRAPPC1 Gene

protein-coding   GIFtS: 53
GCID: GC17M007833

Trafficking Protein Particle Complex 1

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Trafficking Protein Particle Complex 11 2     MUM-22 3
BET52 3 5     BET5 Homolog2 3
MUM22 3 5     Melanoma Ubiquitous Mutated 22
Multiple Myeloma Protein 22 3     Trafficking Protein Particle Complex Subunit 12

External Ids:    HGNC: 198941   Entrez Gene: 584852   Ensembl: ENSG000001700437   OMIM: 6109695   UniProtKB: Q9Y5R83   
ORGUL members:         
NONCODE14:n408885 n408883      

Export aliases for TRAPPC1 gene to outside databases

Previous GC identifers: GC17M007776 GC17M008035 GC17M008036 GC17M007775 GC17M007777 GC17M007728


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for TRAPPC1 Gene:
This gene product plays a role in vesicular transport of proteins to the Golgi apparatus from the endoplasmic
reticulum. The encoded protein is a component of the multisubunit transport protein particle (TRAPP) complex.
Alternative splicing results in multiple transcript variants.(provided by RefSeq, Oct 2009)

GeneCards Summary for TRAPPC1 Gene: 
TRAPPC1 (trafficking protein particle complex 1) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with TRAPPC1 include myeloma, and multiple myeloma.

UniProtKB/Swiss-Prot: TPPC1_HUMAN, Q9Y5R8
Function: May play a role in vesicular transport from endoplasmic reticulum to Golgi




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000017.10  NC_018928.2  NT_010718.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRAPPC1 gene promoter:
         c-Fos   Elk-1   AP-1   Sp1   NCX/Ncx   Tal-1beta   GATA-2   E47   c-Jun   Ik-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRAPPC1 promoter sequence
   Search SABiosciences Chromatin IP Primers for TRAPPC1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRAPPC1


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

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC cytogenetic band: 17p13.1

TRAPPC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRAPPC1 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M007833:  view genomic region     (about GC identifiers)

Start:
7,833,663 bp from pter      End:
7,835,441 bp from pter
Size:
1,779 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for TRAPPC1

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TPPC1_HUMAN, Q9Y5R8 (See protein sequence)
Recommended Name: Trafficking protein particle complex subunit 1  
Size: 145 amino acids; 16832 Da
Subunit: Part of the multisubunit TRAPP (transport protein particle) complex
Subcellular location: Golgi apparatus, cis-Golgi network (By similarity). Endoplasmic reticulum (By similarity)
Secondary accessions: D3DTR0

Explore the universe of human proteins at neXtProt for TRAPPC1: NX_Q9Y5R8

Explore proteomics data for TRAPPC1 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9Y5R8

  • TRAPPC1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TRAPPC1 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001160093.1  NP_067033.1  

    ENSEMBL proteins: 
     ENSP00000459045   ENSP00000302783   ENSP00000460702   ENSP00000460674   ENSP00000460761  
     ENSP00000441130  

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    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005783endoplasmic reticulum IEA--
    GO:0005794Golgi apparatus IEA--
    GO:0005801cis-Golgi network IEA--
    GO:0030008TRAPP complex IEA--

    TRAPPC1 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    TRAPPC: Trafficking protein particle complex

    2 InterPro protein domains:
     IPR007233 Sybindin
     IPR011012 Longin-like_dom

    Graphical View of Domain Structure for InterPro Entry Q9Y5R8

    ProtoNet protein and cluster: Q9Y5R8

    1 Blocks protein domain: IPB007233 Sybindin-like protein

    UniProtKB/Swiss-Prot: TPPC1_HUMAN, Q9Y5R8
    Similarity: Belongs to the TRAPP small subunits family. BET5 subfamily


    TRAPPC1 for domains           About GeneDecksing


    (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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TPPC1_HUMAN, Q9Y5R8
    Function: May play a role in vesicular transport from endoplasmic reticulum to Golgi

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    TRAPPC1 for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for TRAPPC1:
     Decreased p24 protein expressi  Increased gamma-H2AX phosphory 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for TRAPPC1 
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    SwitchGear 3'UTR luciferase reporter plasmidTRAPPC1 3' UTR sequence
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    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRAPPC1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 14)

    5/14 Interacting proteins for TRAPPC1 (Q9Y5R83 ENSP000003027834) via UniProtKB, MINT, STRING, and/or I2D (see all 14)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TRAPPC4Q9Y2963, ENSP000003518964I2D: score=1 STRING: ENSP00000351896
    TRAPPC3O436173, ENSP000003622614I2D: score=1 STRING: ENSP00000362261
    RAB3IPENSP000003680864STRING: ENSP00000368086
    TRAPPC3LENSP000003575914STRING: ENSP00000357591
    TRAPPC2ENSP000003527084STRING: ENSP00000352708
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006810transport ----
    GO:0006888ER to Golgi vesicle-mediated transport IEA--

    TRAPPC1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TRAPPC1 (TPPC1)

    1 DrugBank Compound for TRAPPC1    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    S-PALMITOYL-L-CYSTEINE-- --target--10592235

    Search CenterWatch for drugs/clinical trials and news about TRAPPC1 / TPPC1

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TRAPPC1 gene (2 alternative transcripts): 
    NM_001166621.1  NM_021210.4  

    Unigene Cluster for TRAPPC1:

    Trafficking protein particle complex 1
    Hs.24379  [show with all ESTs]
    Unigene Representative Sequence: BM923325
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000571739 ENST00000303731(uc002gjo.2 uc021tpk.1) ENST00000575639
    ENST00000571947 ENST00000572656 ENST00000573989 ENST00000540486(uc021tpl.1 uc021tpm.1)

    miRNA
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    8/12 QIAGEN miScript miRNA Assays for microRNAs that regulate TRAPPC1 (see all 12):
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    Additional mRNA sequence: 

    AK314038.1 BC025413.1 BC032717.1 NR_030684.1 NR_030697.1 

    10 DOTS entries:

    DT.100792115  DT.80101651  DT.91760282  DT.97847886  DT.95240910  DT.100792116  DT.101981846  DT.95240912 
    DT.120903694  DT.95240905 

    24/384 AceView cDNA sequences (see all 384):

    AA133344 BM091038 BQ277958 BM671855 BM762006 CR609566 BU171673 BM698731 
    BQ917561 BM547775 BM911290 AW517041 BM811338 CA411962 BU184836 CA841706 
    CB243637 BI767775 AI192586 BU732104 AA167646 BM662769 BI491742 BM663873 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC1    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d ^ 3a · 3b ^ 4 ^ 5a · 5b
    SP1:              -                             -                     
    SP2:                                            -                     
    SP3:                                -           -                     
    SP4:                                      -     -                     
    SP5:                                                                  


    ECgene alternative splicing isoforms for TRAPPC1

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TRAPPC1 expression in normal human tissues (normalized intensities)      TRAPPC1 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TCTGCCTGGG
    TRAPPC1 Expression
    About this image


    TRAPPC1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/1 selected tissues (see all 1) fully expand
     
     Heart (Cardiovascular System)
             Cardiac Fibroblasts Myocardium

    See TRAPPC1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRAPPC1

    SOURCE GeneReport for Unigene cluster: Hs.24379
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    (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)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for TRAPPC1 gene from 9/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Trappc11 , 5 trafficking protein particle complex 11, 5 91.26(n)1
    98.62(a)1
      11 (42.51 cM)5
    2458281  NM_001024206.21  NP_001019377.11 
     693239805 
    lizard
    (Anolis carolinensis)
    Reptilia TRAPPC16
    Uncharacterized protein
    84(a)
    1 ↔ 1
    GL343400.1(985831-992125)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.25902 Xenopus laevis transcribed sequence with moderate similarity more 75.69(n)    CF283885.1 
    zebrafish
    (Danio rerio)
    Actinopterygii trappc11 trafficking protein particle complex 1 71.76(n)
    78.47(a)
      437015  NM_001002742.1  NP_001002742.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Bet51 Bet5 56.41(n)
    54.55(a)
      43590  NM_143521.1  NP_651778.1 
    worm
    (Caenorhabditis elegans)
    Secernentea DC2.86
    Protein DC2.8
    36(a)
    1 ↔ 1
    V(201596-204273)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes BET5(YML077W)4 Component of the TRAPP (transport protein particle) more   --   13(111865-112344) 854898  NP_013634.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G511601 SNARE-like protein 53.79(n)
    49.24(a)
      841539  NM_103995.4  NP_175528.1 
    rice
    (Oryza sativa)
    Liliopsida Os01g05137001 hypothetical protein 54.62(n)
    50(a)
      4323988  NM_001049719.1  NP_001043184.1 


    ENSEMBL Gene Tree for TRAPPC1 (if available)
    TreeFam Gene Tree for TRAPPC1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRAPPC1 gene

    TRAPPC1 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TRAPPC1
    PGOHUM00000262350


    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    1 SNPs in TRAPPC1 are shown    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0130284
    A melanoma4--see VAR_0130282 R G mis40--------

    HapMap Linkage Disequilibrium report for TRAPPC1 (7833663 - 7835441 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for TRAPPC1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2670156CNV Deletion23128226
    nsv457660CNV Loss19166990

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 610969    OMIM disorders: --

    4 diseases for TRAPPC1:    About MalaCards
    myeloma    multiple myeloma    melanoma    gastric cancer


    TRAPPC1 for disorders           About GeneDecksing

    Genetic Association Database (GAD): TRAPPC1
    Human Genome Epidemiology (HuGE) Navigator: TRAPPC1 (1 document)

    Export disorders for TRAPPC1 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)
    About This Section

    PubMed articles for TRAPPC1 gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with TRAPPC1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Two antigens recognized by autologous cytolytic T lymphocytes on a melanoma result from a single point mutation in an essential housekeeping gene. (PubMed id 10582700)1, 2, 3, 9 Chiari R....Coulie P.G. (1999)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    3. Functional organization of the yeast proteome by systematic analysis of protein complexes. (PubMed id 11805826)1, 2 Gavin A.-C....Superti-Furga G. (2002)
    4. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (2012)
    5. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    6. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    7. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    8. C4orf41 and TTC-15 are mammalian TRAPP components wit h a role at an early stage in ER-to-Golgi trafficking. (PubMed id 21525244)1 Scrivens P.J....Sacher M. (2011)
    9. Genetic associations of variants in genes encoding HI V-dependency factors required for HIV-1 infection. (PubMed id 21083371)4 Chinn L.W....O'Brien S.J. (2010)
    10. Structure of the Bet3-Tpc6B core of TRAPP: two Tpc6 paralogs form trimeric complexes with Bet3 and Mum2. (PubMed id 16828797)1 Kummel D....Heinemann U. (2006)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 58485 HGNC: 19894 AceView: KCNAB3andTRAPPC1 Ensembl:ENSG00000170043 euGenes: HUgn58485
    ECgene: TRAPPC1 H-InvDB: TRAPPC1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TRAPPC1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TRAPPC1 gene:
    Search GeneIP for patents involving TRAPPC1

    GeneCards and IP:
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