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

Gene ID: 27095, updated on 9-Dec-2018

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 current GRCh38.p12 (GCF_000001405.38) 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 Neighboring gene thyroid hormone receptor associated protein 3 Neighboring gene ubiquitin conjugating enzyme E2 V2 pseudogene 4

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 
Rab guanyl-nucleotide exchange factor activity TAS
Traceable Author Statement
more info
 
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_001270896.1NP_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, ENST00000373166.7
    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

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

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