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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 Albinism-Deafness Syndrome. Among its related pathways are Vesicle-mediated transport 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

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

Genomics for TRAPPC3 Gene

Regulatory Elements for TRAPPC3 Gene

Enhancers for TRAPPC3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G036133 1.4 Ensembl ENCODE dbSUPER 30.2 +20.3 20296 4.8 HDAC1 RB1 INSM2 RAD21 ZNF121 GATA2 ZNF143 FOS ZNF263 ZNF654 TRAPPC3 MAP7D1 ENSG00000271914 TFAP2E ADPRHL2 TEKT2 LOC100128093 AGO1 LSM10 COL8A2
GH01G036247 1.8 FANTOM5 Ensembl ENCODE dbSUPER 11.5 -92.7 -92669 3.0 HDGF FOXA2 ATF1 ARNT ARID4B ZNF48 YY1 TCF12 SLC30A9 GTF3C2 THRAP3 TRAPPC3 LOC105378647 ENSG00000116883 AGO3 AGO1 UBE2V2P4 SH3D21
GH01G036299 1.6 Ensembl ENCODE dbSUPER 10.9 -147.7 -147731 8.8 HDGF PKNOX1 MLX ARNT AGO1 ARID4B SIN3A DMAP1 ZNF2 YY1 STK40 ENSG00000201448 OSCP1 MAP7D1 TRAPPC3 LSM10 RNU4-27P LOC100128093 TEKT2 ADPRHL2
GH01G036222 1.4 ENCODE dbSUPER 11.9 -68.3 -68339 4.7 MLX CREB3L1 AGO1 FEZF1 DMAP1 YY1 ZNF143 SP3 NFYC MEF2D ZMYM4 MAP7D1 TRAPPC3 AGO1 COL8A2 ADPRHL2 TEKT2 LOC100128093 LSM10 RNU4-27P
GH01G036154 1.4 ENCODE dbSUPER 11.6 -0.6 -615 4.5 PKNOX1 ARID4B SIN3A ZNF2 ZBTB7B ZNF143 ZNF548 FOS ZNF263 SP3 SFPQ RPL5P4 ZMYM4 THRAP3 MAP7D1 COL8A2 EVA1B TRAPPC3 LOC105378647 RN7SL131P
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRAPPC3 on UCSC Golden Path with GeneCards custom track

Promoters for TRAPPC3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000004753 -547 2401 PKNOX1 ARNT ARID4B SIN3A ZNF2 ZBTB7B ZNF143 ZNF548 FOS ZNF263

Genomic Location for TRAPPC3 Gene

Chromosome:
1
Start:
36,136,569 bp from pter
End:
36,156,053 bp from pter
Size:
19,485 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 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, Lys46, and isoforms=2156
  • 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.

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

Clone 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

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 IDA --
GO:0005829 cytosol TAS,IDA --
GO:0030008 TRAPP complex IEA --
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:0043547 positive regulation of GTPase activity IEA --
GO:0048193 Golgi vesicle transport IEA --
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
MYRISTIC ACID Experimental Pharma Target 0
Palmitic Acid Experimental Pharma Full agonist, Agonist, Target 22
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

Clone 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

Primer Products

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 34 35
  • 100 (n)
dog
(Canis familiaris)
Mammalia TRAPPC3 34 35
  • 94.68 (n)
cow
(Bos Taurus)
Mammalia TRAPPC3 35
  • 94 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trappc3 34
  • 90.74 (n)
oppossum
(Monodelphis domestica)
Mammalia TRAPPC3 35
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trappc3 34 16 35
  • 89.07 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC3 35
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRAPPC3 34 35
  • 82.41 (n)
lizard
(Anolis carolinensis)
Reptilia TRAPPC3 35
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trappc3 34
  • 77.78 (n)
Str.1115 34
African clawed frog
(Xenopus laevis)
Amphibia trappc3-prov 34
zebrafish
(Danio rerio)
Actinopterygii trappc3 34 35
  • 76.48 (n)
Dr.21964 34
fruit fly
(Drosophila melanogaster)
Insecta Bet3 34 35
  • 60.49 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013291 34
  • 59.55 (n)
worm
(Caenorhabditis elegans)
Secernentea ZK1098.5 34
  • 51.9 (n)
trpp-3 35
  • 49 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes BET3 34 35 37
  • 56.59 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGR300W 34
  • 55.62 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F16126g 34
  • 55.56 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G54750 34
  • 57.95 (n)
soybean
(Glycine max)
eudicotyledons Gma.933 34
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1118 34
rice
(Oryza sativa)
Liliopsida Os03g0402000 34
  • 59.8 (n)
Os.3933 34
barley
(Hordeum vulgare)
Liliopsida Hv.2943 34
corn
(Zea mays)
Liliopsida Zm.3039 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8333 35
  • 69 (a)
OneToMany
bread mold
(Neurospora crassa)
Ascomycetes NCU05796 34
  • 59.75 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes bet3 34
  • 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 Sequence Context AA Info Type
rs751375244 Likely pathogenic 36,139,776(+) TGACC(A/G)AGCCA intron-variant, reference, missense
rs1000030864 -- 36,137,631(+) CACCA(A/T)GTAAA intron-variant
rs1000075580 -- 36,152,912(+) CTCCC(A/G)AAGTG intron-variant
rs1000234844 -- 36,141,473(+) GACCC(A/G)ATGCT intron-variant
rs1000417468 -- 36,149,783(+) AGAGA(C/T)GATGC intron-variant, upstream-variant-2KB

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)

Relevant External Links 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

(3) MalaCards diseases for TRAPPC3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
tietz albinism-deafness syndrome
  • tietz syndrome
albinism-deafness syndrome
  • albinism deafness syndrome
cardiac tamponade
  • pericardial tamponade
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for TRAPPC3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 P.J. … Sacher M. (Mol. Biol. Cell 2011) 3 4 64
  2. Biochemical and crystallographic studies reveal a specific interaction between TRAPP subunits Trs33p and Bet3p. (PMID: 16262728) Kim M.-S. … Sacher M. (Traffic 2005) 3 4 64
  3. Structure of palmitoylated BET3: insights into TRAPP complex assembly and membrane localization. (PMID: 15692564) Turnbull A.P. … Heinemann U. (EMBO J. 2005) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for TRAPPC3 Gene

Sources for TRAPPC3 Gene

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