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Aliases for TRAPPC3 Gene

Aliases for TRAPPC3 Gene

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

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 3) is a Protein Coding gene. Diseases associated with TRAPPC3 include Tietz Albinism-Deafness Syndrome and Cardiac Tamponade. Among its related pathways are Metabolism of proteins and Transport to the Golgi and subsequent modification. An important paralog of this gene is TRAPPC3L.

UniProtKB/Swiss-Prot for TRAPPC3 Gene

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

Gene Wiki entry for TRAPPC3 Gene

Additional gene information for TRAPPC3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAPPC3 Gene

Genomics for TRAPPC3 Gene

GeneHancer (GH) Regulatory Elements for TRAPPC3 Gene

Promoters and enhancers for TRAPPC3 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
GH01I036148 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 550.4 +5.2 5205 4.9 ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF548 SP3 TRAPPC3 SFPQ MAP7D1 AGO3 STK40 ZMYM4 THRAP3 COL8A2 LOC105378647 EVA1B
GH01I036154 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 578.9 -0.6 -614 4.5 PKNOX1 SMAD1 ARID4B SIN3A ZNF2 ZBTB7B POLR2B ZNF213 ZNF143 ZNF548 MAP7D1 TRAPPC3 SFPQ ZMYM4 AGO3 RPL5P4 THRAP3 COL8A2 EVA1B LOC105378647
GH01I036384 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 21.9 -232.1 -232080 7.8 CLOCK MLX FEZF1 DMAP1 YY1 E2F8 ZNF416 ZNF143 SP3 NFYC STK40 EVA1B THRAP3 LOC105378647 TRAPPC3 AGO3 ENSG00000116883 SH3D21 SNORA63C OSCP1
GH01I036133 Enhancer 1.3 Ensembl ENCODE dbSUPER 30.2 +20.3 20296 4.8 HDAC1 RB1 INSM2 RAD21 ZBTB40 ZNF335 ZNF121 ARID2 ZNF143 FOS TRAPPC3 MAP7D1 ZMYM4 AGO3 SFPQ ADPRHL2 LOC100128093 TEKT2 LSM10 COL8A2
GH01I035553 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 13.3 +599.2 599187 6 MLX FEZF1 DMAP1 YBX1 YY1 ZNF213 ZNF143 SP3 NFYC ZFP41 KIAA0319L NCDN ZMYM4 ZMYM6 SFPQ AGO3 ZMYM1 LOC653160 ENSG00000230163 TRAPPC3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRAPPC3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRAPPC3 gene promoter:

Genomic Locations for TRAPPC3 Gene

Genomic Locations for TRAPPC3 Gene
chr1:36,136,569-36,156,053
(GRCh38/hg38)
Size:
19,485 bases
Orientation:
Minus strand
chr1:36,602,173-36,615,098
(GRCh37/hg19)

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 TRAPP (transport protein particle) 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.

    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 isoforms=13, isoforms=46, and posLast=156156
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRAPPC3 Gene

Domains & Families for TRAPPC3 Gene

Gene Families for TRAPPC3 Gene

Suggested Antigen Peptide Sequences for TRAPPC3 Gene

GenScript: Design optimal peptide antigens:

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
GO:0017112 Rab guanyl-nucleotide exchange factor activity TAS --
genes like me logo Genes that share ontologies with TRAPPC3: view
genes like me logo Genes that share phenotypes with TRAPPC3: view

Animal Model Products

CRISPR Products

miRNA for TRAPPC3 Gene

miRTarBase miRNAs that target TRAPPC3

Inhibitory RNA Products

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
golgi apparatus 5
endoplasmic reticulum 4
mitochondrion 2
peroxisome 1
nucleus 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 TAS,IEA --
GO:0030008 TRAPP complex IDA,IEA 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:0006810 transport IEA --
GO:0006888 ER to Golgi vesicle-mediated transport IEA --
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, Experimental Pharma Full agonist, Agonist, Target 23
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

Unigene Clusters for TRAPPC3 Gene

Trafficking protein particle complex 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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
ECgene alternative splicing isoforms for
TRAPPC3

Expression for TRAPPC3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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, PaxDb, MaxQB, and MOPED for TRAPPC3 Gene



Protein tissue co-expression partners for TRAPPC3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRAPPC3 Gene:

TRAPPC3

SOURCE GeneReport for Unigene cluster for TRAPPC3 Gene:

Hs.523131

Evidence on tissue expression from TISSUES for TRAPPC3 Gene

  • Intestine(4.3)
  • Muscle(4.3)
  • Liver(4.2)
  • Nervous system(2.7)
genes like me logo Genes that share expression patterns with TRAPPC3: view

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 33 34
  • 100 (n)
dog
(Canis familiaris)
Mammalia TRAPPC3 33 34
  • 94.68 (n)
cow
(Bos Taurus)
Mammalia TRAPPC3 34
  • 94 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trappc3 33
  • 90.74 (n)
oppossum
(Monodelphis domestica)
Mammalia TRAPPC3 34
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trappc3 33 16 34
  • 89.07 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC3 34
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRAPPC3 33 34
  • 82.41 (n)
lizard
(Anolis carolinensis)
Reptilia TRAPPC3 34
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trappc3 33
  • 77.78 (n)
Str.1115 33
African clawed frog
(Xenopus laevis)
Amphibia trappc3-prov 33
zebrafish
(Danio rerio)
Actinopterygii trappc3 33 34
  • 76.48 (n)
Dr.21964 33
fruit fly
(Drosophila melanogaster)
Insecta Bet3 33 34
  • 60.49 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013291 33
  • 59.55 (n)
worm
(Caenorhabditis elegans)
Secernentea ZK1098.5 33
  • 51.9 (n)
trpp-3 34
  • 49 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes BET3 33 34 36
  • 56.59 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGR300W 33
  • 55.62 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F16126g 33
  • 55.56 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G54750 33
  • 57.95 (n)
soybean
(Glycine max)
eudicotyledons Gma.933 33
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1118 33
rice
(Oryza sativa)
Liliopsida Os03g0402000 33
  • 59.8 (n)
Os.3933 33
barley
(Hordeum vulgare)
Liliopsida Hv.2943 33
corn
(Zea mays)
Liliopsida Zm.3039 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8333 34
  • 69 (a)
OneToMany
bread mold
(Neurospora crassa)
Ascomycetes NCU05796 33
  • 59.75 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes bet3 33
  • 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 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)

Paralogs for TRAPPC3 Gene

Paralogs for TRAPPC3 Gene

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

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

Variants for TRAPPC3 Gene

Sequence variations from dbSNP and Humsavar for TRAPPC3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs751375244 likely-pathogenic, Bardet-Biedl syndrome 36,139,776(-) G/A coding_sequence_variant, intron_variant, missense_variant
rs1000030864 -- 36,137,631(-) T/A intron_variant
rs1000075580 -- 36,152,912(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000234844 -- 36,141,473(-) A/G intron_variant
rs1000417468 -- 36,149,783(-) T/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

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

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

Disorders for TRAPPC3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for TRAPPC3 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
tietz albinism-deafness syndrome
  • tads
cardiac tamponade
  • pericardial tamponade
- 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 58
  2. Structure of palmitoylated BET3: insights into TRAPP complex assembly and membrane localization. (PMID: 15692564) Turnbull AP … Heinemann U (The EMBO journal 2005) 3 4 58
  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 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  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 58

Products for TRAPPC3 Gene

Sources for TRAPPC3 Gene

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