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

Gene ID: 78232, updated on 2-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 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

Gene LinkOut

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