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    TRAPPC3 trafficking protein particle complex 3 [ Homo sapiens (human) ]

    Gene ID: 27095, updated on 7-Jul-2019

    Summary

    Official Symbol
    TRAPPC3provided by HGNC
    Official Full Name
    trafficking protein particle complex 3provided by HGNC
    Primary source
    HGNC:HGNC:19942
    See related
    Ensembl:ENSG00000054116 MIM:610955
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    BET3
    Summary
    This gene encodes a component of the trafficking protein particle complex, which tethers transport vesicles to the cis-Golgi membrane. The encoded protein participates in the regulation of transport from the endoplasmic reticulum to the Golgi apparatus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]
    Expression
    Ubiquitous expression in thyroid (RPKM 23.9), adrenal (RPKM 19.7) and 25 other tissues See more
    Orthologs

    Genomic context

    See TRAPPC3 in Genome Data Viewer
    Location:
    1p34.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (36136569..36156053, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (36602170..36621654, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ADP-ribosylhydrolase like 2 Neighboring gene collagen type VIII alpha 2 chain Neighboring gene MAP7 domain containing 1 Neighboring gene RNA, 7SL, cytoplasmic 131, pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • Asparagine N-linked glycosylation, organism-specific biosystem (from REACTOME)
      Asparagine N-linked glycosylation, organism-specific biosystemN-linked glycosylation is the most important form of post-translational modification for proteins synthesized and folded in the Endoplasmic Reticulum (Stanley et al. 2009). An early study in 1999 rev...
    • COPII (Coat Protein 2) Mediated Vesicle Transport, organism-specific biosystem (from REACTOME)
      COPII (Coat Protein 2) Mediated Vesicle Transport, organism-specific biosystemCOPII components (known as Sec13p, Sec23p, Sec24p, Sec31p, and Sar1p in yeast) traffic cargo from the endoplasmic reticulum to the ER-Golgi intermediate compartment (ERGIC). COPII-coated vesicles wer...
    • ER to Golgi Anterograde Transport, organism-specific biosystem (from REACTOME)
      ER to Golgi Anterograde Transport, organism-specific biosystemSecretory cargo destined to be secreted or to arrive at the plasma membrane (PM) leaves the ER via distinct exit sites. This cargo is destined for the Golgi apparatus for further processing.
    • Membrane Trafficking, organism-specific biosystem (from REACTOME)
      Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
    • Metabolism of proteins, organism-specific biosystem (from REACTOME)
      Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
    • Post-translational protein modification, organism-specific biosystem (from REACTOME)
      Post-translational protein modification, organism-specific biosystemAfter translation, many newly formed proteins undergo further covalent modifications that alter their functional properties and that are essentially irreversible under physiological conditions in the...
    • RAB GEFs exchange GTP for GDP on RABs, organism-specific biosystem (from REACTOME)
      RAB GEFs exchange GTP for GDP on RABs, organism-specific biosystemHuman cells have more than 60 RAB proteins that are key regulators of intracellular membrane trafficking. These small GTPases contribute to trafficking specificity by localizing to the membranes of d...
    • Transport to the Golgi and subsequent modification, organism-specific biosystem (from REACTOME)
      Transport to the Golgi and subsequent modification, organism-specific biosystemAt least two mechanisms of transport of proteins from the ER to the Golgi have been described. One is a general flow requiring no export signals (Wieland et al, 1987; Martinez-Menarguez et al, 1999)....
    • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
      Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • 1110058K12Rik

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    contributes_to Rab guanyl-nucleotide exchange factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    COPII vesicle coating TAS
    Traceable Author Statement
    more info
     
    ER to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    intra-Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Golgi apparatus IDA
    Inferred from Direct Assay
    more info
     
    Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
     
    TRAPP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    TRAPP complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cis-Golgi network membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytosol IDA
    Inferred from Direct Assay
    more info
     
    cytosol TAS
    Traceable Author Statement
    more info
     
    endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    trafficking protein particle complex subunit 3

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_052857.1 RefSeqGene

      Range
      11540..24485
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001270894.1NP_001257823.1  trafficking protein particle complex subunit 3 isoform 2

      See identical proteins and their annotated locations for NP_001257823.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region, compared to variant 1. The encoded isoform (2) is longer than isoform 1.
      Source sequence(s)
      BC007662, BG704657, CB053319, CD251784
      Consensus CDS
      CCDS72758.1
      UniProtKB/Swiss-Prot
      O43617
      UniProtKB/TrEMBL
      A0A087WWM0
      Related
      ENSP00000480332.1, ENST00000616395.4
      Conserved Domains (1) summary
      cd14942
      Location:15177
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
    2. NM_001270895.1NP_001257824.1  trafficking protein particle complex subunit 3 isoform 3

      See identical proteins and their annotated locations for NP_001257824.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an in-frame downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Variants 3 and 4 encode the same isoform (3).
      Source sequence(s)
      BC007662, BM451581, CB053319
      Consensus CDS
      CCDS59194.1
      UniProtKB/Swiss-Prot
      O43617
      Related
      ENSP00000480648.1, ENST00000617904.4
      Conserved Domains (1) summary
      cd14942
      Location:1123
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
    3. NM_001270896.2NP_001257825.1  trafficking protein particle complex subunit 3 isoform 3

      See identical proteins and their annotated locations for NP_001257825.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region and uses a downstream in-frame start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Variants 3 and 4 encode the same isoform (3).
      Source sequence(s)
      BC007662, BG704657, BI462429, BI762992, CB053319
      Consensus CDS
      CCDS59194.1
      UniProtKB/Swiss-Prot
      O43617
      Related
      ENSP00000362256.1, ENST00000373162.5
      Conserved Domains (1) summary
      cd14942
      Location:1123
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
    4. NM_001270897.1NP_001257826.1  trafficking protein particle complex subunit 3 isoform 4

      See identical proteins and their annotated locations for NP_001257826.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks two exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      BC007662, BG704657, CB053319, T26006
      Consensus CDS
      CCDS72757.1
      UniProtKB/Swiss-Prot
      O43617
      UniProtKB/TrEMBL
      A0A087WYS5
      Related
      ENSP00000482052.1, ENST00000616074.4
      Conserved Domains (1) summary
      cd14942
      Location:15103
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
    5. NM_014408.5NP_055223.1  trafficking protein particle complex subunit 3 isoform 1

      See identical proteins and their annotated locations for NP_055223.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes isoform (1).
      Source sequence(s)
      BC007662, BG704657
      Consensus CDS
      CCDS404.1
      UniProtKB/Swiss-Prot
      O43617
      Related
      ENSP00000362261.3, ENST00000373166.8
      Conserved Domains (1) summary
      cd14942
      Location:15169
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

    RNA

    1. NR_073097.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) differs at the 5' end and lacks two internal exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
      Source sequence(s)
      BC007662, BG704657, BI462429, CB053319, HY104588
    2. NR_073098.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) lacks three internal exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
      Source sequence(s)
      AA446176, BC007662, BG704657, CB053319

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

      Range
      36136569..36156053 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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