U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Protein

    • Showing Current items.

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

    Gene ID: 27095, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    TRAPPC3provided by HGNC
    Official Full Name
    trafficking protein particle complex subunit 3provided by HGNC
    Primary source
    HGNC:HGNC:19942
    See related
    Ensembl:ENSG00000054116 MIM:610955; AllianceGenome:HGNC:19942
    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
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See TRAPPC3 in Genome Data Viewer
    Location:
    1p34.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (36136572..36156053, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (35999451..36018932, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (36602173..36621654, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36553996-36554581 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36554582-36555166 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36563075-36563583 Neighboring gene ADP-ribosylserine hydrolase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 654 Neighboring gene collagen type VIII alpha 2 chain Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36579590-36580530 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36580531-36581471 Neighboring gene MPRA-validated peak176 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:36614757-36615417 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 655 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 656 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36625977-36626754 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 745 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 746 Neighboring gene MAP7 domain containing 1 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:36638149-36639348 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 657 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36643121-36643768 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36643769-36644414 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36644415-36645060 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36653458-36654156 Neighboring gene RNA, 7SL, cytoplasmic 131, pseudogene

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: HPA RNA-seq normal tissues 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Structure of palmitoylated BET3: insights into TRAPP complex assembly and membrane localization. Turnbull AP, et al. EMBO J, 2005 Mar 9. PMID 15692564, Free PMC Article
    2. mBet3p is required for homotypic COPII vesicle tethering in mammalian cells. Yu S, et al. J Cell Biol, 2006 Jul 31. PMID 16880271, Free PMC Article
    3. Unique self-palmitoylation activity of the transport protein particle component Bet3: a mechanism required for protein stability. Kümmel D, et al. Proc Natl Acad Sci U S A, 2006 Aug 22. PMID 16908848, Free PMC Article
    4. Entry and exit mechanisms at the cis-face of the Golgi complex. Lorente-Rodríguez A, et al. Cold Spring Harb Perspect Biol, 2011 Jul 1. PMID 21482742, Free PMC Article
    5. Structure of the Bet3-Tpc6B core of TRAPP: two Tpc6 paralogs form trimeric complexes with Bet3 and Mum2. Kümmel D, et al. J Mol Biol, 2006 Aug 4. PMID 16828797

    See all (67) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TRAPPC3 expression in healthy human palatal mucosa is strongly negatively correlated with serum cotinine levels.
      Title: Whole transcriptome analysis of smoker palatal mucosa identifies multiple downregulated innate immunity genes.
    2. crystal structure
      Title: Structure of palmitoylated BET3: insights into TRAPP complex assembly and membrane localization.
    3. Bet3 functions as a cytosolic factor participating in transport from the ER to the Golgi apparatus
      Title: Mammalian Bet3 functions as a cytosolic factor participating in transport from the ER to the Golgi apparatus.
    4. mBet3p is required for the tethering and fusion of COPII vesicles to each other.
      Title: mBet3p is required for homotypic COPII vesicle tethering in mammalian cells.
    5. Bet3 has strong self-palmitoylating activity
      Title: Unique self-palmitoylation activity of the transport protein particle component Bet3: a mechanism required for protein stability.
    6. The crystal structure of human Bet3-Tpc6B heterodimer presented here represents a core sub-complex in the assembly of TRAPP.
      Title: Structure of the Bet3-Tpc6B core of TRAPP: two Tpc6 paralogs form trimeric complexes with Bet3 and Mum2.
    Submit: New GeneRIF Correction

    Phenotypes

    Go to the top of the page Help

    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • 1110058K12Rik

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in COPII vesicle coating NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in intra-Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in vesicle coating NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in vesicle tethering NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of TRAPP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of TRAPP complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of TRAPPII protein complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of TRAPPIII protein complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    is_active_in cis-Golgi network membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    trafficking protein particle complex subunit 3
    Names
    trafficking protein particle complex 3

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      11568..24482
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001270894.2 → NP_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, CB053319, CD251784
      Consensus CDS
      CCDS72758.1
      UniProtKB/TrEMBL
      A0A087WWM0
      Related
      ENSP00000480332.1, ENST00000616395.4
      Conserved Domains (1) summary
      cd14942
      Location:15 → 177
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

    2. NM_001270895.2 → NP_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:1 → 123
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

    3. NM_001270896.2 → NP_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:1 → 123
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

    4. NM_001270897.2 → NP_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/TrEMBL
      A0A087WYS5
      Related
      ENSP00000482052.1, ENST00000616074.4
      Conserved Domains (1) summary
      cd14942
      Location:15 → 103
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

    5. NM_014408.5 → NP_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
      A6NDN0, B2RDN2, D3DPS2, O43617
      Related
      ENSP00000362261.3, ENST00000373166.8
      Conserved Domains (1) summary
      cd14942
      Location:15 → 169
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex

    RNA

    1. NR_073097.2 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_073098.2 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: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      36136572..36156053 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      35999451..36018932 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O43617.1 GenPept UniProtKB/Swiss-Prot:O43617

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous