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

Gene ID: 315059, updated on 27-Nov-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. 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, Nov 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
    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

  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

    Related
    ENSRNOP00000089103.1, ENSRNOT00000102533.2

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

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

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

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

    Related
    ENSRNOP00000060689.3, ENSRNOT00000067327.5

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

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

Nucleotide Protein Strain
Heading Accession and Version

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