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

    Gene ID: 27095, updated on 28-Oct-2024

    Summary

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    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

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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

    Preferred Names
    trafficking protein particle complex subunit 3
    Names
    trafficking protein particle complex 3

    NCBI Reference Sequences (RefSeq)

    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_001270894.2NP_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:15177
      TRAPPC3_bet3; Bet3-TRAPPC3 subunit of the TRAPP complex
    2. NM_001270895.2NP_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_001270897.2NP_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: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
      A6NDN0, B2RDN2, D3DPS2, 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_073097.2 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)