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    Trappc9 trafficking protein particle complex subunit 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315059, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Trappc9provided by RGD
    Official Full Name
    trafficking protein particle complex subunit 9provided by RGD
    Primary source
    RGD:1309461
    See related
    EnsemblRapid:ENSRNOG00000027569 AllianceGenome:RGD:1309461
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Nibp; RGD1309461
    Summary
    Predicted to be involved in cerebral cortex development. Predicted to act upstream of or within neuron differentiation and positive regulation of NF-kappaB transcription factor activity. Predicted to be located in cytoplasm. Predicted to be part of TRAPP complex. Predicted to be active in trans-Golgi network. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 13. Orthologous to human TRAPPC9 (trafficking protein particle complex subunit 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 84.3), Lung (RPKM 83.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trappc9 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (106410339..106887364, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (104521593..104998352, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (113986363..114309090, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479748 Neighboring gene small nucleolar RNA U3 Neighboring gene potassium two pore domain channel subfamily K member 9 Neighboring gene U7 small nuclear RNA Neighboring gene uncharacterized LOC134479750 Neighboring gene uncharacterized LOC134479749 Neighboring gene uncharacterized LOC134479922 Neighboring gene chromatin accessibility complex subunit 1 Neighboring gene argonaute RISC catalytic component 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Expression and function of NIK- and IKK2-binding protein (NIBP) in mouse enteric nervous system. Zhang Y, et al. Neurogastroenterol Motil, 2014 Jan. PMID 24011459, Free PMC Article
    2. Noncanonical and canonical splice sites: a novel mutation at the rare noncanonical splice-donor cut site (IVS4+1A>G) of SEDL causes variable splicing isoforms in X-linked spondyloepiphyseal dysplasia tarda. Xiong F, et al. Eur J Hum Genet, 2009 Apr. PMID 19002213, Free PMC Article
    3. A truncating mutation of TRAPPC9 is associated with autosomal-recessive intellectual disability and postnatal microcephaly. Mochida GH, et al. Am J Hum Genet, 2009 Dec. PMID 20004763, Free PMC Article
    4. NIBP, a novel NIK and IKK(beta)-binding protein that enhances NF-(kappa)B activation. Hu WH, et al. J Biol Chem, 2005 Aug 12. PMID 15951441, Free PMC Article
    5. C4orf41 and TTC-15 are mammalian TRAPP components with a role at an early stage in ER-to-Golgi trafficking. Scrivens PJ, et al. Mol Biol Cell, 2011 Jun 15. PMID 21525244, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cerebral cortex development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    NOT located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of TRAPP complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT located_in late endosome ISO
    Inferred from Sequence Orthology
    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 9
    Names
    NIK and IKK(beta) binding protein
    NIK and IKK{beta} binding protein
    trafficking protein particle complex 9

    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_001034156.2 → NP_001029328.1  trafficking protein particle complex subunit 9

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A8I6AB20, E9PU02
      Related
      ENSRNOP00000038503.7, ENSRNOT00000038172.9
      Conserved Domains (1) summary
      pfam08626
      Location:70 → 1091
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      106410339..106887364 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063263588.1 → XP_063119658.1  trafficking protein particle complex subunit 9 isoform X11

      UniProtKB/TrEMBL
      A0A8I6AB20, E9PU02

    2. XM_063263579.1 → XP_063119649.1  trafficking protein particle complex subunit 9 isoform X2

    3. XM_063263587.1 → XP_063119657.1  trafficking protein particle complex subunit 9 isoform X10

      UniProtKB/TrEMBL
      A0A8I6AB20

    4. XM_063263578.1 → XP_063119648.1  trafficking protein particle complex subunit 9 isoform X1

    5. XM_063263586.1 → XP_063119656.1  trafficking protein particle complex subunit 9 isoform X9

      UniProtKB/TrEMBL
      A0A8I6AB20
      Related
      ENSRNOP00000089103.1, ENSRNOT00000102533.2

    6. XM_063263582.1 → XP_063119652.1  trafficking protein particle complex subunit 9 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AB20

    7. XM_063263581.1 → XP_063119651.1  trafficking protein particle complex subunit 9 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AB20

    8. XM_063263580.1 → XP_063119650.1  trafficking protein particle complex subunit 9 isoform X3

      UniProtKB/TrEMBL
      A0A8I6AB20

    9. XM_063263584.1 → XP_063119654.1  trafficking protein particle complex subunit 9 isoform X7

      UniProtKB/TrEMBL
      D3ZJK6
      Related
      ENSRNOP00000060689.3, ENSRNOT00000067327.5

    10. XM_063263585.1 → XP_063119655.1  trafficking protein particle complex subunit 9 isoform X8

      UniProtKB/TrEMBL
      D3ZJK6

    11. XM_063263583.1 → XP_063119653.1  trafficking protein particle complex subunit 9 isoform X6

      UniProtKB/TrEMBL
      D3ZJK6
    Nucleotide Protein Strain
    Heading Accession and Version

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