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    Trappc6b trafficking protein particle complex 6B [ Mus musculus (house mouse) ]

    Gene ID: 78232, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Trappc6bprovided by MGI
    Official Full Name
    trafficking protein particle complex 6Bprovided by MGI
    Primary source
    MGI:MGI:1925482
    See related
    Ensembl:ENSMUSG00000020993 AllianceGenome:MGI:1925482
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    5830498C14Rik
    Summary
    Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport. Predicted to be located in endoplasmic reticulum. Predicted to be part of TRAPP complex. Predicted to be active in cis-Golgi network and trans-Golgi network. Is expressed in ganglia; trigeminal nerve; and ventral grey horn. Human ortholog(s) of this gene implicated in neurodevelopmental disorder with microcephaly, epilepsy, and brain atrophy. Orthologous to human TRAPPC6B (trafficking protein particle complex subunit 6B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in adrenal adult (RPKM 28.5), CNS E18 (RPKM 27.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Trappc6b in Genome Data Viewer
    Location:
    12 C1; 12 25.99 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (59089878..59108258, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (59043092..59061472, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene gem nuclear organelle associated protein 2 Neighboring gene STARR-positive B cell enhancer ABC_E10751 Neighboring gene STARR-positive B cell enhancer mm9_chr12:60138923-60139223 Neighboring gene STARR-positive B cell enhancer mm9_chr12:60139247-60139547 Neighboring gene predicted gene, 22973 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:60167580-60167851 Neighboring gene pinin Neighboring gene ribosomal protein S2 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. TRAPP Complexes in Secretion and Autophagy. Kim JJ, et al. Front Cell Dev Biol, 2016. PMID 27066478, Free PMC Article
    2. Extensive molecular differences between anterior- and posterior-half-sclerotomes underlie somite polarity and spinal nerve segmentation. Hughes DS, et al. BMC Dev Biol, 2009 May 22. PMID 19463158, Free PMC Article
    3. Viral Infection-Induced Differential Expression of LncRNAs Associated with Collagen in Mouse Placentas and Amniotic Sacs. Pan J, et al. Am J Reprod Immunol, 2015 Sep. PMID 26073538
    4. The ATG5 interactome links clathrin-mediated vesicular trafficking with the autophagosome assembly machinery. Baines K, et al. Autophagy Rep, 2022. PMID 35449600, Free PMC Article
    5. Cracking the egg: molecular dynamics and evolutionary aspects of the transition from the fully grown oocyte to embryo. Evsikov AV, et al. Genes Dev, 2006 Oct 1. PMID 17015433, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    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 nervous system development IEA
    Inferred from Electronic Annotation
    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
    part_of TRAPP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of TRAPPII protein complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    is_active_in cis-Golgi network IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in trans-Golgi network IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    trafficking protein particle complex subunit 6B
    Names
    TRAPP complex subunit 6B

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_001306217.1 → NP_001293146.1  trafficking protein particle complex subunit 6B isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, resulting in a frameshift, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AK020026, CO039101, DV660612
      Consensus CDS
      CCDS88340.1
      UniProtKB/TrEMBL
      A0A1W2P7S5
      Related
      ENSMUSP00000151772.2, ENSMUST00000217863.2
      Conserved Domains (1) summary
      cd14944
      Location:3 → 117
      TRAPPC6A_Trs33; Trs33 subunit of the TRAPP complex

    2. NM_001306218.1 → NP_001293147.1  trafficking protein particle complex subunit 6B isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains an alternate exon in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC153654, AK020026, CO039101, DV660612
      UniProtKB/Swiss-Prot
      Q9D289
      Conserved Domains (1) summary
      cd14944
      Location:1 → 118
      TRAPPC6A_Trs33; Trs33 subunit of the TRAPP complex

    3. NM_030057.3 → NP_084333.1  trafficking protein particle complex subunit 6B isoform 1

      See identical proteins and their annotated locations for NP_084333.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AK020026, CO039101, DV660612
      Consensus CDS
      CCDS25932.1
      UniProtKB/Swiss-Prot
      Q9D289
      Related
      ENSMUSP00000021380.9, ENSMUST00000021380.10
      Conserved Domains (1) summary
      cd14944
      Location:3 → 156
      TRAPPC6A_Trs33; Trs33 subunit of the TRAPP complex

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000078.7 Reference GRCm39 C57BL/6J

      Range
      59089878..59108258 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036157668.1 → XP_036013561.1  trafficking protein particle complex subunit 6B isoform X1

      Conserved Domains (1) summary
      cd14944
      Location:1 → 118
      TRAPPC6A_Trs33; Trs33 subunit of the TRAPP complex
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D289.1 GenPept UniProtKB/Swiss-Prot:Q9D289

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