Free for academic non-profit institutions. Other users need a Commercial license

Aliases for TRAPPC6B Gene

Aliases for TRAPPC6B Gene

  • Trafficking Protein Particle Complex 6B 2 3 5
  • Trafficking Protein Particle Complex Subunit 6B 3
  • TPC6 3

External Ids for TRAPPC6B Gene

Previous GeneCards Identifiers for TRAPPC6B Gene

  • GC14M037607
  • GC14M038686
  • GC14M039617
  • GC14M019731

Summaries for TRAPPC6B Gene

Entrez Gene Summary for TRAPPC6B Gene

  • TRAPPC6B is a component of TRAPP complexes, which are tethering complexes involved in vesicle transport (Kummel et al., 2005 [PubMed 16025134]).[supplied by OMIM, Mar 2008]

GeneCards Summary for TRAPPC6B Gene

TRAPPC6B (Trafficking Protein Particle Complex 6B) is a Protein Coding gene. Diseases associated with TRAPPC6B include Neurodevelopmental Disorder With Microcephaly, Epilepsy, And Brain Atrophy. Among its related pathways are Metabolism of proteins and Transport to the Golgi and subsequent modification. An important paralog of this gene is TRAPPC6A.

UniProtKB/Swiss-Prot for TRAPPC6B Gene

  • May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Additional gene information for TRAPPC6B Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAPPC6B Gene

Genomics for TRAPPC6B Gene

GeneHancer (GH) Regulatory Elements for TRAPPC6B Gene

Promoters and enhancers for TRAPPC6B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH14I039168 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 555.7 +0.5 493 3 SMAD1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 SLC30A9 POLR2B TRAPPC6B PNN ENSG00000259083 FBXO33 SEC23A RPL7AP2 GC14P039155
GH14I039173 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 5.5 -4.9 -4912 3.3 PKNOX1 CLOCK SMAD1 MLX ARNT ZFP64 ARID4B NEUROD1 SIN3A DMAP1 PNN ENSG00000259083 RPL7AP2 GEMIN2 SEC23A FBXO33 CTAGE5 TRAPPC6B GC14P039155
GH14I039101 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 4.9 +67.4 67353 3.8 HDGF FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZBTB7B YY1 SLC30A9 SEC23A SEC23A-AS1 PNN RPL7AP2 ENSG00000259083 CTAGE5 TRAPPC6B GC14M038906
GH14I039113 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 4.6 +56.2 56156 2 HDGF FOXA2 MLX ARID4B SIN3A FEZF1 DMAP1 YY1 SLC30A9 POLR2B GEMIN2 LOC105370459 PNN CTAGE5 SEC23A TRAPPC6B
GH14I039096 Enhancer 1 Ensembl ENCODE 4.9 +73.1 73090 1.1 ELF3 FOXA2 MLX ARID4B RARA CREM MIXL1 MIER2 ELF1 PPARG PNN FBXO33 TRAPPC6B ENSG00000259121 SEC23A-AS1 GC14M038906 SEC23A
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRAPPC6B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRAPPC6B gene promoter:

Genomic Locations for TRAPPC6B Gene

Genomic Locations for TRAPPC6B Gene
chr14:39,147,811-39,170,532
(GRCh38/hg38)
Size:
22,722 bases
Orientation:
Minus strand
chr14:39,617,015-39,639,736
(GRCh37/hg19)

Genomic View for TRAPPC6B Gene

Genes around TRAPPC6B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAPPC6B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAPPC6B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAPPC6B Gene

Proteins for TRAPPC6B Gene

  • Protein details for TRAPPC6B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86SZ2-TPC6B_HUMAN
    Recommended name:
    Trafficking protein particle complex subunit 6B
    Protein Accession:
    Q86SZ2
    Secondary Accessions:
    • B3KPS2
    • Q5JPD6
    • Q86U35
    • Q86X35

    Protein attributes for TRAPPC6B Gene

    Size:
    158 amino acids
    Molecular mass:
    17983 Da
    Quaternary structure:
    • Part of the multisubunit TRAPP (transport protein particle) complex. Homodimer. Heterodimer with TRAPPC3.
    SequenceCaution:
    • Sequence=CAD62341.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TRAPPC6B Gene

    Alternative splice isoforms for TRAPPC6B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRAPPC6B Gene

Post-translational modifications for TRAPPC6B Gene

Other Protein References for TRAPPC6B Gene

No data available for DME Specific Peptides for TRAPPC6B Gene

Domains & Families for TRAPPC6B Gene

Gene Families for TRAPPC6B Gene

Graphical View of Domain Structure for InterPro Entry

Q86SZ2

UniProtKB/Swiss-Prot:

TPC6B_HUMAN :
  • Belongs to the TRAPP small subunits family. BET3 subfamily.
Family:
  • Belongs to the TRAPP small subunits family. BET3 subfamily.
genes like me logo Genes that share domains with TRAPPC6B: view

Function for TRAPPC6B Gene

Molecular function for TRAPPC6B Gene

UniProtKB/Swiss-Prot Function:
May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Phenotypes From GWAS Catalog for TRAPPC6B Gene

Gene Ontology (GO) - Molecular Function for TRAPPC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16908848
GO:0017112 Rab guanyl-nucleotide exchange factor activity TAS --
genes like me logo Genes that share ontologies with TRAPPC6B: view
genes like me logo Genes that share phenotypes with TRAPPC6B: view

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRAPPC6B Gene

Localization for TRAPPC6B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRAPPC6B Gene

Golgi apparatus, cis-Golgi network. Endoplasmic reticulum.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRAPPC6B gene
Compartment Confidence
cytosol 5
golgi apparatus 4
endoplasmic reticulum 3
mitochondrion 1
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRAPPC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005794 Golgi apparatus IEA --
GO:0005801 cis-Golgi network IBA --
GO:0005802 trans-Golgi network IBA --
genes like me logo Genes that share ontologies with TRAPPC6B: view

Pathways & Interactions for TRAPPC6B Gene

genes like me logo Genes that share pathways with TRAPPC6B: view

Gene Ontology (GO) - Biological Process for TRAPPC6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0006888 ER to Golgi vesicle-mediated transport IBA --
GO:0016192 vesicle-mediated transport IEA --
GO:0048208 COPII vesicle coating TAS --
GO:0065009 regulation of molecular function IEA --
genes like me logo Genes that share ontologies with TRAPPC6B: view

No data available for SIGNOR curated interactions for TRAPPC6B Gene

Drugs & Compounds for TRAPPC6B Gene

(1) Drugs for TRAPPC6B Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
S-PALMITOYL-L-CYSTEINE Experimental Pharma Target 0
genes like me logo Genes that share compounds with TRAPPC6B: view

Transcripts for TRAPPC6B Gene

Unigene Clusters for TRAPPC6B Gene

Trafficking protein particle complex 6B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC6B Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7a · 7b
SP1: - -
SP2: - - - - -
SP3: - - -
SP4: - -
SP5:

Relevant External Links for TRAPPC6B Gene

GeneLoc Exon Structure for
TRAPPC6B
ECgene alternative splicing isoforms for
TRAPPC6B

Expression for TRAPPC6B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRAPPC6B Gene

Protein differential expression in normal tissues from HIPED for TRAPPC6B Gene

This gene is overexpressed in Cardia (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRAPPC6B Gene



Protein tissue co-expression partners for TRAPPC6B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRAPPC6B Gene:

TRAPPC6B

SOURCE GeneReport for Unigene cluster for TRAPPC6B Gene:

Hs.13303

Evidence on tissue expression from TISSUES for TRAPPC6B Gene

  • Lymph node(4.2)
  • Nervous system(3.8)
genes like me logo Genes that share expression patterns with TRAPPC6B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRAPPC6B Gene

Orthologs for TRAPPC6B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRAPPC6B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRAPPC6B 34 33
  • 99.37 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC6B 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRAPPC6B 34 33
  • 97.26 (n)
OneToOne
cow
(Bos Taurus)
Mammalia TRAPPC6B 34 33
  • 96.41 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trappc6b 33
  • 94.09 (n)
mouse
(Mus musculus)
Mammalia Trappc6b 33 16 34
  • 92.19 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 91 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
chicken
(Gallus gallus)
Aves TRAPPC6B 34 33
  • 83.97 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRAPPC6B 34
  • 94 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trappc6b 33
  • 79.96 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC52668 33
zebrafish
(Danio rerio)
Actinopterygii trappc6b 34 33
  • 72.61 (n)
OneToOne
zgc66304 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13840 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002385 33
  • 60.35 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG6196 34 33
  • 55.19 (n)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea CELE_K08H10.9 33
  • 52.28 (n)
trpp-6 34
  • 39 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRS33 34 36
  • 20 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G05000 33
  • 59.02 (n)
rice
(Oryza sativa)
Liliopsida Os07g0291100 33
  • 57.92 (n)
wheat
(Triticum aestivum)
Liliopsida Ta.7375 33
barley
(Hordeum vulgare)
Liliopsida Hv.2066 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 74 (a)
OneToMany
bread mold
(Neurospora crassa)
Ascomycetes NCU06212 33
  • 53.85 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes trs33 33
  • 48.48 (n)
Species where no ortholog for TRAPPC6B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for TRAPPC6B Gene

ENSEMBL:
Gene Tree for TRAPPC6B (if available)
TreeFam:
Gene Tree for TRAPPC6B (if available)

Paralogs for TRAPPC6B Gene

Paralogs for TRAPPC6B Gene

(1) SIMAP similar genes for TRAPPC6B Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with TRAPPC6B: view

Variants for TRAPPC6B Gene

Sequence variations from dbSNP and Humsavar for TRAPPC6B Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
rs1000007592 -- 39,163,015(-) T/C intron_variant
rs1000221466 -- 39,151,435(-) G/A 3_prime_UTR_variant, intron_variant
rs1000392277 -- 39,168,588(-) A/G intron_variant
rs1000524105 -- 39,154,670(-) T/C intron_variant
rs1000535371 -- 39,154,857(-) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TRAPPC6B Gene

Variant ID Type Subtype PubMed ID
esv2670683 CNV deletion 23128226
esv27326 CNV loss 19812545
esv3634140 CNV loss 21293372
nsv1051247 CNV gain 25217958
nsv85488 CNV deletion 16902084
nsv977459 CNV duplication 23825009

Variation tolerance for TRAPPC6B Gene

Residual Variation Intolerance Score: 34% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.44; 9.58% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRAPPC6B Gene

Human Gene Mutation Database (HGMD)
TRAPPC6B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAPPC6B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAPPC6B Gene

Disorders for TRAPPC6B Gene

MalaCards: The human disease database

(1) MalaCards diseases for TRAPPC6B Gene - From: ClinVar

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for TRAPPC6B

genes like me logo Genes that share disorders with TRAPPC6B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRAPPC6B Gene

Publications for TRAPPC6B Gene

  1. The structure of the TRAPP subunit TPC6 suggests a model for a TRAPP subcomplex. (PMID: 16025134) Kümmel D … Heinemann U (EMBO reports 2005) 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58

Products for TRAPPC6B Gene

Sources for TRAPPC6B Gene

Content
Loading form....