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    TRAPPC9 trafficking protein particle complex subunit 9 [ Homo sapiens (human) ]

    Gene ID: 83696, updated on 1-Mar-2024

    Summary

    Official Symbol
    TRAPPC9provided by HGNC
    Official Full Name
    trafficking protein particle complex subunit 9provided by HGNC
    Primary source
    HGNC:HGNC:30832
    See related
    Ensembl:ENSG00000167632 MIM:611966; AllianceGenome:HGNC:30832
    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
    T1; IBP; NIBP; MRT13; TRS120; IKBKBBP
    Summary
    This gene encodes a protein that likely plays a role in NF-kappa-B signaling. Mutations in this gene have been associated with autosomal-recessive cognitive disability. Alternatively spliced transcript variants have been described.[provided by RefSeq, Feb 2010]
    Expression
    Ubiquitous expression in brain (RPKM 3.1), thyroid (RPKM 2.8) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See TRAPPC9 in Genome Data Viewer
    Location:
    8q24.3
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (139727725..140458579, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (140847842..141578742, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (140739968..141468678, complement)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:139706354-139706854 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:139706855-139707355 Neighboring gene collagen type XXII alpha 1 chain Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19571 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:139782916-139783886 Neighboring gene MPRA-validated peak7186 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:139806119-139806619 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:139860841-139861342 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:139925385-139926230 Neighboring gene Sharpr-MPRA regulatory region 3511 Neighboring gene Sharpr-MPRA regulatory region 9382 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:139965113-139965801 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:139966492-139967180 Neighboring gene NANOG hESC enhancer GRCh37_chr8:140009858-140010359 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140033795-140034296 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:140181537-140182736 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:140221580-140221764 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:140227217-140228416 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:140294263-140294817 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:140416894-140417542 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19572 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:140440618-140441118 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:140441119-140441619 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:140471614-140472148 Neighboring gene Sharpr-MPRA regulatory region 3867 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19573 Neighboring gene Sharpr-MPRA regulatory region 15097 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140748966-140749712 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140762149-140762649 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140784193-140784820 Neighboring gene potassium two pore domain channel subfamily K member 9 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140842647-140843284 Neighboring gene Sharpr-MPRA regulatory region 11049 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:140853452-140853976 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140850831-140851354 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:140850306-140850830 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140856599-140857122 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:140860017-140860572 Neighboring gene uncharacterized LOC107986981 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140875463-140876436 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140886258-140886840 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:140906595-140907794 Neighboring gene MPRA-validated peak7187 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140920429-140920932 Neighboring gene uncharacterized LOC105375781 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140926649-140927188 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140949298-140949857 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140951259-140951760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140951761-140952260 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:140965559-140965725 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:140983608-140984108 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr8:141058150-141058375 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141067573-141068074 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141071871-141072712 Neighboring gene chromosome 8 putative open reading frame 17 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141109891-141110390 Neighboring gene uncharacterized LOC124902029 Neighboring gene MPRA-validated peak7188 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141274731-141275554 Neighboring gene uncharacterized LOC105375779 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141282982-141283482 Neighboring gene paternally expressed 13 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141309152-141309652 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141309653-141310153 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141312322-141312822 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141312823-141313323 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:141319328-141320527 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141321045-141321545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141320544-141321044 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:141341524-141342398 Neighboring gene Sharpr-MPRA regulatory region 993 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:141355797-141356018 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19574 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141375096-141375596 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:141375597-141376097 Neighboring gene Sharpr-MPRA regulatory region 8823 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141458229-141458802 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141458803-141459375 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19576 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:141468097-141468615 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19575 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:141474198-141475397 Neighboring gene uncharacterized LOC105375782 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19579 Neighboring gene MPRA-validated peak7190 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr8:141518766-141518946 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28027 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28028 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19580 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28029 Neighboring gene chromatin accessibility complex subunit 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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?

    Phenotypes

    Associated conditions

    Description Tests
    Intellectual disability, autosomal recessive 13
    MedGen: C2750791 OMIM: 613192 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Gene-Smoking Interactions Identify Several Novel Blood Pressure Loci in the Framingham Heart Study.
    EBI GWAS Catalog
    Genome-wide association study of d-amphetamine response in healthy volunteers identifies putative associations, including cadherin 13 (CDH13).
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC4737, MGC4769, KIAA1882

    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 cerebral cortex development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in neuron differentiation 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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of TRAPPII protein complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    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

    Preferred Names
    trafficking protein particle complex subunit 9
    Names
    IKK2 binding protein
    NIK and IKK-beta binding protein
    NIK- and IKBKB-binding protein
    TRAPP 120 kDa subunit
    trafficking protein particle complex 9
    tularik gene 1 protein

    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_016478.3 RefSeqGene

      Range
      5001..735855
      Download
      GenBank, FASTA, Sequence Viewer (Graphics), LRG_1041

    mRNA and Protein(s)

    1. NM_001160372.4NP_001153844.1  trafficking protein particle complex subunit 9 isoform b

      See identical proteins and their annotated locations for NP_001153844.1

      Status: REVIEWED

      Source sequence(s)
      AB067469, AC007869, AC040978, AC091022, DA228705, DA778234, R49592
      Consensus CDS
      CCDS55278.1
      UniProtKB/Swiss-Prot
      Q4VTT3, Q658K7, Q6P149, Q6ZQT3, Q7L5C4, Q86Y21, Q96Q05, Q96SL2, Q9BQA2
      UniProtKB/TrEMBL
      H0YBR0
      Related
      ENSP00000405060.3, ENST00000438773.4
      Conserved Domains (1) summary
      pfam08626
      Location:141100
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    2. NM_001321646.2NP_001308575.1  trafficking protein particle complex subunit 9 isoform c

      Status: REVIEWED

      Source sequence(s)
      AC007869, AC040978, BC006206, DA228705, DA778234, R49592
      UniProtKB/TrEMBL
      H0YBR0
      Related
      ENSP00000430116.1, ENST00000520857.5
      Conserved Domains (1) summary
      pfam08626
      Location:141091
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    3. NM_001374682.1NP_001361611.1  trafficking protein particle complex subunit 9 isoform d

      Status: REVIEWED

      Source sequence(s)
      AC007869, AC021744, AC040978, AC091022, AC104244
      UniProtKB/TrEMBL
      H0YBR0
      Conserved Domains (1) summary
      pfam08626
      Location:141107
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    4. NM_001374683.1NP_001361612.1  trafficking protein particle complex subunit 9 isoform e

      Status: REVIEWED

      Source sequence(s)
      AC007869, AC021744, AC040978, AC091022, AC104244
      UniProtKB/TrEMBL
      H0YBR0
      Conserved Domains (1) summary
      pfam08626
      Location:141063
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    5. NM_001374684.1NP_001361613.1  trafficking protein particle complex subunit 9 isoform f

      Status: REVIEWED

      Source sequence(s)
      AC007869, AC021744, AC040978, AC091022, AC104244
      UniProtKB/TrEMBL
      H0YBR0
      Conserved Domains (1) summary
      pfam08626
      Location:141052
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    6. NM_031466.8NP_113654.5  trafficking protein particle complex subunit 9 isoform b

      Status: REVIEWED

      Source sequence(s)
      AC007869, AC021744, AC040978, AC091022, AC104244
      Consensus CDS
      CCDS55278.1
      UniProtKB/Swiss-Prot
      Q4VTT3, Q658K7, Q6P149, Q6ZQT3, Q7L5C4, Q86Y21, Q96Q05, Q96SL2, Q9BQA2
      UniProtKB/TrEMBL
      H0YBR0
      Related
      ENSP00000498020.1, ENST00000648948.2
      Conserved Domains (1) summary
      pfam08626
      Location:141100
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit

    RNA

    1. NR_164662.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC007869, AC021636, AC021744, AC040978, AC091022, AC104244

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      139727725..140458579 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011517326.3XP_011515628.1  trafficking protein particle complex subunit 9 isoform X1

      UniProtKB/TrEMBL
      H0YBR0
      Conserved Domains (1) summary
      pfam08626
      Location:1121189
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    2. XM_017013894.3XP_016869383.1  trafficking protein particle complex subunit 9 isoform X10

    3. XM_011517330.3XP_011515632.1  trafficking protein particle complex subunit 9 isoform X11

      Conserved Domains (1) summary
      pfam08626
      Location:16583
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    4. XM_047422295.1XP_047278251.1  trafficking protein particle complex subunit 9 isoform X4

      UniProtKB/TrEMBL
      H0YBR0
    5. XM_047422294.1XP_047278250.1  trafficking protein particle complex subunit 9 isoform X3

    6. XM_011517328.3XP_011515630.1  trafficking protein particle complex subunit 9 isoform X2

      Conserved Domains (1) summary
      pfam08626
      Location:1121094
      TRAPPC9-Trs120; Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit
    7. XM_047422297.1XP_047278253.1  trafficking protein particle complex subunit 9 isoform X6

      UniProtKB/TrEMBL
      H0YBR0
    8. XM_047422296.1XP_047278252.1  trafficking protein particle complex subunit 9 isoform X5

      UniProtKB/TrEMBL
      H0YBR0
    9. XM_047422298.1XP_047278254.1  trafficking protein particle complex subunit 9 isoform X8

    10. XM_017013893.2XP_016869382.1  trafficking protein particle complex subunit 9 isoform X7

    11. XM_047422299.1XP_047278255.1  trafficking protein particle complex subunit 9 isoform X9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      140847842..141578742 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054361328.1XP_054217303.1  trafficking protein particle complex subunit 9 isoform X1

      UniProtKB/TrEMBL
      H0YBR0
    2. XM_054361337.1XP_054217312.1  trafficking protein particle complex subunit 9 isoform X10

    3. XM_054361338.1XP_054217313.1  trafficking protein particle complex subunit 9 isoform X11

    4. XM_054361331.1XP_054217306.1  trafficking protein particle complex subunit 9 isoform X4

      UniProtKB/TrEMBL
      H0YBR0
    5. XM_054361330.1XP_054217305.1  trafficking protein particle complex subunit 9 isoform X3

    6. XM_054361329.1XP_054217304.1  trafficking protein particle complex subunit 9 isoform X2

    7. XM_054361333.1XP_054217308.1  trafficking protein particle complex subunit 9 isoform X6

      UniProtKB/TrEMBL
      H0YBR0
    8. XM_054361332.1XP_054217307.1  trafficking protein particle complex subunit 9 isoform X5

      UniProtKB/TrEMBL
      H0YBR0
    9. XM_054361335.1XP_054217310.1  trafficking protein particle complex subunit 9 isoform X8

    10. XM_054361334.1XP_054217309.1  trafficking protein particle complex subunit 9 isoform X7

    11. XM_054361336.1XP_054217311.1  trafficking protein particle complex subunit 9 isoform X9