This gene encodes a component of the trafficking protein particle complex, which tethers transport vesicles to the cis-Golgi membrane. The encoded protein participates in the regulation of transport from the endoplasmic reticulum to the Golgi apparatus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012] See more...

Aliases for TRAPPC3 Gene

Aliases for TRAPPC3 Gene

  • Trafficking Protein Particle Complex Subunit 3 2 3 4
  • Trafficking Protein Particle Complex 3 2 3 5
  • BET3 2 3 4
  • BET3 Homolog 4
  • TRAPPC3 5

External Ids for TRAPPC3 Gene

Previous GeneCards Identifiers for TRAPPC3 Gene

  • GC01M036028
  • GC01M036029
  • GC01M036271
  • GC01M036374
  • GC01M036602
  • GC01M034719

Summaries for TRAPPC3 Gene

Entrez Gene Summary for TRAPPC3 Gene

  • This gene encodes a component of the trafficking protein particle complex, which tethers transport vesicles to the cis-Golgi membrane. The encoded protein participates in the regulation of transport from the endoplasmic reticulum to the Golgi apparatus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]

GeneCards Summary for TRAPPC3 Gene

TRAPPC3 (Trafficking Protein Particle Complex Subunit 3) is a Protein Coding gene. Diseases associated with TRAPPC3 include Bardet-Biedl Syndrome and Bardet-Biedl Syndrome 1. Among its related pathways are Vesicle-mediated transport and RAB GEFs exchange GTP for GDP on RABs. An important paralog of this gene is TRAPPC3L.

UniProtKB/Swiss-Prot Summary for TRAPPC3 Gene

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

Gene Wiki entry for TRAPPC3 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TRAPPC3 Gene

Genomics for TRAPPC3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TRAPPC3 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TRAPPC3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TRAPPC3

Top Transcription factor binding sites by QIAGEN in the TRAPPC3 gene promoter:
  • aMEF-2
  • ARP-1
  • c-Myb
  • HOXA9
  • HOXA9B
  • Ik-3
  • MEF-2A
  • Meis-1
  • MyoD
  • RREB-1

Genomic Locations for TRAPPC3 Gene

Latest Assembly
chr1:36,136,570-36,156,053
(GRCh38/hg38)
Size:
19,484 bases
Orientation:
Minus strand

Previous Assembly
chr1:36,602,173-36,621,654
(GRCh37/hg19 by Entrez Gene)
Size:
19,482 bases
Orientation:
Minus strand

chr1:36,602,173-36,615,098
(GRCh37/hg19 by Ensembl)
Size:
12,926 bases
Orientation:
Minus strand

Genomic View for TRAPPC3 Gene

Genes around TRAPPC3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAPPC3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAPPC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAPPC3 Gene

Proteins for TRAPPC3 Gene

  • Protein details for TRAPPC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43617-TPPC3_HUMAN
    Recommended name:
    Trafficking protein particle complex subunit 3
    Protein Accession:
    O43617
    Secondary Accessions:
    • A6NDN0
    • B2RDN2
    • D3DPS2

    Protein attributes for TRAPPC3 Gene

    Size:
    180 amino acids
    Molecular mass:
    20274 Da
    Quaternary structure:
    • Homodimer. Component of the multisubunit transport protein particle (TRAPP) complex, which includes at least TRAPPC2, TRAPPC2L, TRAPPC3, TRAPPC3L, TRAPPC4, TRAPPC5, TRAPPC8, TRAPPC9, TRAPPC10, TRAPPC11 and TRAPPC12. Heterodimer with TRAPPC6A. The heterodimer TRAPPC3-TRAPPC6A interacts with TRAPPC2L (PubMed:11805826, PubMed:15692564, PubMed:16262728, PubMed:19416478, PubMed:21525244). Heterodimer with TRAPPC6b. The heterodimer TRAPPC6B-TRAPPC3 interacts with TRAPPC1 likely providing a core for TRAPP complex formation (PubMed:16828797).

    Three dimensional structures from OCA and Proteopedia for TRAPPC3 Gene

    Alternative splice isoforms for TRAPPC3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRAPPC3 Gene

Post-translational modifications for TRAPPC3 Gene

  • Ubiquitination at Lys13, Lys46, and Lys156
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRAPPC3 Gene

Domains & Families for TRAPPC3 Gene

Gene Families for TRAPPC3 Gene

Protein Domains for TRAPPC3 Gene

InterPro:
Blocks:
  • Transport protein particle (TRAPP) component, Bet3

Suggested Antigen Peptide Sequences for TRAPPC3 Gene

GenScript: Design optimal peptide antigens:
  • BET3 homolog (TPPC3_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O43617

UniProtKB/Swiss-Prot:

TPPC3_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 TRAPPC3: view

Function for TRAPPC3 Gene

Molecular function for TRAPPC3 Gene

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

Phenotypes From GWAS Catalog for TRAPPC3 Gene

Gene Ontology (GO) - Molecular Function for TRAPPC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with TRAPPC3: view
genes like me logo Genes that share phenotypes with TRAPPC3: view

miRNA for TRAPPC3 Gene

miRTarBase miRNAs that target TRAPPC3

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRAPPC3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRAPPC3 Gene

Localization for TRAPPC3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRAPPC3 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 TRAPPC3 gene
Compartment Confidence
cytosol 5
endoplasmic reticulum 4
golgi apparatus 4
mitochondrion 2
endosome 2
plasma membrane 1
extracellular 1
cytoskeleton 1
peroxisome 1
nucleus 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (3)
  • Cytosol (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRAPPC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005794 Golgi apparatus IEA,IDA --
GO:0005829 cytosol IEA,TAS --
GO:0030008 TRAPP complex IEA,IDA 21525244
genes like me logo Genes that share ontologies with TRAPPC3: view

Pathways & Interactions for TRAPPC3 Gene

genes like me logo Genes that share pathways with TRAPPC3: view

Gene Ontology (GO) - Biological Process for TRAPPC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006888 ER to Golgi vesicle-mediated transport IEA,IBA 21873635
GO:0006891 intra-Golgi vesicle-mediated transport IBA 21873635
GO:0016192 vesicle-mediated transport IEA --
GO:0048193 Golgi vesicle transport IEA --
GO:0048208 COPII vesicle coating TAS --
genes like me logo Genes that share ontologies with TRAPPC3: view

No data available for SIGNOR curated interactions for TRAPPC3 Gene

Drugs & Compounds for TRAPPC3 Gene

(3) Drugs for TRAPPC3 Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Palmitic Acid Approved Pharma Target 27
Myristic acid Experimental Pharma Target 0
S-palmitoyl-L-cysteine Experimental Pharma Target 0
genes like me logo Genes that share compounds with TRAPPC3: view

Transcripts for TRAPPC3 Gene

mRNA/cDNA for TRAPPC3 Gene

5 REFSEQ mRNAs :
15 NCBI additional mRNA sequence :
10 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRAPPC3

Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c ^ 5 ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c · 7d · 7e · 7f
SP1: - - - - - - -
SP2: - - - - - -
SP3: - - - - -
SP4: - - - - -
SP5: - - - - - - - - -
SP6: - - - - - -
SP7: - - - - -
SP8: - -
SP9: -
SP10: - - - - - - - - - - - - - -

Relevant External Links for TRAPPC3 Gene

GeneLoc Exon Structure for
TRAPPC3

Expression for TRAPPC3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TRAPPC3 Gene

Protein differential expression in normal tissues from HIPED for TRAPPC3 Gene

This gene is overexpressed in Bone (25.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TRAPPC3 Gene



Protein tissue co-expression partners for TRAPPC3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TRAPPC3

SOURCE GeneReport for Unigene cluster for TRAPPC3 Gene:

Hs.523131

Evidence on tissue expression from TISSUES for TRAPPC3 Gene

  • Intestine(4.4)
  • Liver(4.3)
  • Muscle(4.3)
  • Nervous system(3.1)
  • Skin(2.3)
  • Kidney(2.1)
genes like me logo Genes that share expression patterns with TRAPPC3: view

Primer products for research

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRAPPC3 Gene

Orthologs for TRAPPC3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRAPPC3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia TRAPPC3 29 30
  • 100 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia TRAPPC3 29 30
  • 94.68 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia TRAPPC3 30
  • 94 (a)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Trappc3 29
  • 90.74 (n)
Oppossum
(Monodelphis domestica)
Mammalia TRAPPC3 30
  • 90 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Trappc3 29 16 30
  • 89.07 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC3 30
  • 89 (a)
OneToOne
Chicken
(Gallus gallus)
Aves TRAPPC3 29 30
  • 82.41 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia TRAPPC3 30
  • 93 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia trappc3 29
  • 77.78 (n)
Str.1115 29
African clawed frog
(Xenopus laevis)
Amphibia trappc3-prov 29
Zebrafish
(Danio rerio)
Actinopterygii trappc3 29 30
  • 76.48 (n)
OneToOne
Dr.21964 29
Fruit Fly
(Drosophila melanogaster)
Insecta Bet3 29 30
  • 60.49 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013291 29
  • 59.55 (n)
Worm
(Caenorhabditis elegans)
Secernentea ZK1098.5 29
  • 51.9 (n)
trpp-3 30
  • 49 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes BET3 29 30 32
  • 56.59 (n)
OneToMany
A. gosspyii yeast
(Eremothecium gossypii)
Saccharomycetes AGOS_AGR300W 29
  • 55.62 (n)
K. Lactis Yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F16126g 29
  • 55.56 (n)
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT5G54750 29
  • 57.95 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1118 29
Soybean
(Glycine max)
eudicotyledons Gma.933 29
Rice
(Oryza sativa)
Liliopsida Os03g0402000 29
  • 59.8 (n)
Os.3933 29
Barley
(Hordeum vulgare)
Liliopsida Hv.2943 29
Corn
(Zea mays)
Liliopsida Zm.3039 29
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.8333 30
  • 69 (a)
OneToMany
Bread mold
(Neurospora crassa)
Ascomycetes NCU05796 29
  • 59.75 (n)
Fission Yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes bet3 29
  • 58.08 (n)
Species where no ortholog for TRAPPC3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for TRAPPC3 Gene

ENSEMBL:
Gene Tree for TRAPPC3 (if available)
TreeFam:
Gene Tree for TRAPPC3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TRAPPC3: view image
Alliance of Genome Resources:
Additional Orthologs for TRAPPC3

Paralogs for TRAPPC3 Gene

Paralogs for TRAPPC3 Gene

(1) SIMAP similar genes for TRAPPC3 Gene using alignment to 2 proteins:

  • TPPC3_HUMAN
  • A6NKE1_HUMAN
genes like me logo Genes that share paralogs with TRAPPC3: view

Variants for TRAPPC3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TRAPPC3 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs2231313 Benign: not provided 36,139,735(-) C/T
NM_014408.5(TRAPPC3):c.225G>A (p.Ala75=)
SYNONYMOUS_VARIANT,INTRON
rs751375244 Likely Pathogenic: Bardet-Biedl syndrome 36,139,776(-) G/A
NM_014408.5(TRAPPC3):c.184C>T (p.Arg62Trp)
MISSENSE_VARIANT,INTRON

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TRAPPC3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for TRAPPC3 Gene

Variant ID Type Subtype PubMed ID
esv2758931 CNV loss 17122850
nsv10106 CNV gain 18304495
nsv545992 CNV loss 21841781
nsv545993 CNV loss 21841781
nsv545994 CNV loss 21841781
nsv545995 CNV loss 21841781
nsv834691 CNV loss 17160897

Variation tolerance for TRAPPC3 Gene

Residual Variation Intolerance Score: 55.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.31; 6.96% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRAPPC3 Gene

Human Gene Mutation Database (HGMD)
TRAPPC3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAPPC3
Leiden Open Variation Database (LOVD)
TRAPPC3

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAPPC3 Gene

Disorders for TRAPPC3 Gene

MalaCards: The human disease database

(5) MalaCards diseases for TRAPPC3 Gene - From: CVR, COP, and GCD

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for TRAPPC3

genes like me logo Genes that share disorders with TRAPPC3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRAPPC3 Gene

Publications for TRAPPC3 Gene

  1. C4orf41 and TTC-15 are mammalian TRAPP components with a role at an early stage in ER-to-Golgi trafficking. (PMID: 21525244) Scrivens PJ … Sacher M (Molecular biology of the cell 2011) 3 4
  2. Structure of the Bet3-Tpc6B core of TRAPP: two Tpc6 paralogs form trimeric complexes with Bet3 and Mum2. (PMID: 16828797) Kümmel D … Heinemann U (Journal of molecular biology 2006) 3 4
  3. Biochemical and crystallographic studies reveal a specific interaction between TRAPP subunits Trs33p and Bet3p. (PMID: 16262728) Kim MS … Sacher M (Traffic (Copenhagen, Denmark) 2005) 3 4
  4. Structure of palmitoylated BET3: insights into TRAPP complex assembly and membrane localization. (PMID: 15692564) Turnbull AP … Heinemann U (The EMBO journal 2005) 3 4
  5. 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

Products for TRAPPC3 Gene

Sources for TRAPPC3 Gene