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Aliases for TRAPPC4 Gene

Aliases for TRAPPC4 Gene

  • Trafficking Protein Particle Complex 4 2 3 5
  • Hematopoietic Stem/Progenitor Cell Protein 172 3 4
  • TRS23 Homolog 3 4
  • SYNBINDIN 3 4
  • SBDN 3 4
  • Trafficking Protein Particle Complex Subunit 4 3
  • CGI-104 3
  • HSPC172 3
  • PTD009 3
  • TRS23 3

External Ids for TRAPPC4 Gene

Previous GeneCards Identifiers for TRAPPC4 Gene

  • GC11P118923
  • GC11P118426
  • GC11P118394
  • GC11P114828
  • GC11P118889

Summaries for TRAPPC4 Gene

GeneCards Summary for TRAPPC4 Gene

TRAPPC4 (Trafficking Protein Particle Complex 4) is a Protein Coding gene. Among its related pathways are Metabolism of proteins and Transport to the Golgi and subsequent modification. Gene Ontology (GO) annotations related to this gene include Rab guanyl-nucleotide exchange factor activity.

UniProtKB/Swiss-Prot for TRAPPC4 Gene

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

Gene Wiki entry for TRAPPC4 Gene

Additional gene information for TRAPPC4 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAPPC4 Gene

Genomics for TRAPPC4 Gene

GeneHancer (GH) Regulatory Elements for TRAPPC4 Gene

Promoters and enhancers for TRAPPC4 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
GH11I119015 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 622.8 -0.4 -371 4.6 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 YY1 TRAPPC4 GC11P119045 PIR60932 RPS25 MIR3656 PIR32149 BCL9L ARCN1 ENSG00000254909 UBE4A
GH11I119024 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 97.8 +9.5 9500 7.3 HDGF PKNOX1 FOXA2 CLOCK MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC37A4 TRAPPC4 VPS11 MIR3656
GH11I118996 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 63.5 -20.4 -20374 3.2 PKNOX1 MLX ARID4B SIN3A DMAP1 IRF4 YY1 SLC30A9 POLR2B ZNF143 CCDC84 ENSG00000255121 TRAPPC4 GC11P119002
GH11I119020 Enhancer 0.8 ENCODE 98.1 +3.2 3236 1.9 ELF3 FOXA2 RARA YY1 CREM HMG20B RXRA CEBPB REST NR2F2 TRAPPC4 RPS25 MIR3656 SLC37A4
GH11I119016 Enhancer 0.6 ENCODE 73.4 -3.0 -2966 0.2 CTCF RAD21 ZBTB40 YY1 TEAD3 ZNF121 POLR2A ZBTB33 SUPT5H TRAPPC4 ENSG00000254909 CCDC84
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRAPPC4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRAPPC4 gene promoter:

Genomic Locations for TRAPPC4 Gene

Genomic Locations for TRAPPC4 Gene
chr11:119,018,432-119,025,454
(GRCh38/hg38)
Size:
7,023 bases
Orientation:
Plus strand
chr11:118,889,142-118,896,164
(GRCh37/hg19)

Genomic View for TRAPPC4 Gene

Genes around TRAPPC4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAPPC4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAPPC4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAPPC4 Gene

Proteins for TRAPPC4 Gene

  • Protein details for TRAPPC4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y296-TPPC4_HUMAN
    Recommended name:
    Trafficking protein particle complex subunit 4
    Protein Accession:
    Q9Y296
    Secondary Accessions:
    • A8K3A5
    • B4DME1

    Protein attributes for TRAPPC4 Gene

    Size:
    219 amino acids
    Molecular mass:
    24340 Da
    Quaternary structure:
    • 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. Interacts with SDC2 (By similarity).

    Three dimensional structures from OCA and Proteopedia for TRAPPC4 Gene

    Alternative splice isoforms for TRAPPC4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRAPPC4 Gene

Post-translational modifications for TRAPPC4 Gene

  • Ubiquitination at isoforms=241
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRAPPC4 Gene

Domains & Families for TRAPPC4 Gene

Gene Families for TRAPPC4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for TRAPPC4 Gene

Suggested Antigen Peptide Sequences for TRAPPC4 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y296

UniProtKB/Swiss-Prot:

TPPC4_HUMAN :
  • Belongs to the TRAPP small subunits family. TRAPPC4 subfamily.
Family:
  • Belongs to the TRAPP small subunits family. TRAPPC4 subfamily.
genes like me logo Genes that share domains with TRAPPC4: view

Function for TRAPPC4 Gene

Molecular function for TRAPPC4 Gene

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

Phenotypes From GWAS Catalog for TRAPPC4 Gene

Gene Ontology (GO) - Molecular Function for TRAPPC4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 17110339
GO:0017112 Rab guanyl-nucleotide exchange factor activity IBA,TAS --
genes like me logo Genes that share ontologies with TRAPPC4: view
genes like me logo Genes that share phenotypes with TRAPPC4: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRAPPC4 Gene

Localization for TRAPPC4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRAPPC4 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 TRAPPC4 gene
Compartment Confidence
cytosol 5
golgi apparatus 5
endoplasmic reticulum 4
mitochondrion 2
cytoskeleton 1
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for TRAPPC4 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:0005795 Golgi stack ISS 11018053
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TRAPPC4: view

Pathways & Interactions for TRAPPC4 Gene

genes like me logo Genes that share pathways with TRAPPC4: view

Gene Ontology (GO) - Biological Process for TRAPPC4 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:0016358 dendrite development ISS 11018053
GO:0048208 COPII vesicle coating TAS --
genes like me logo Genes that share ontologies with TRAPPC4: view

No data available for SIGNOR curated interactions for TRAPPC4 Gene

Drugs & Compounds for TRAPPC4 Gene

(1) Drugs for TRAPPC4 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 TRAPPC4: view

Transcripts for TRAPPC4 Gene

Unigene Clusters for TRAPPC4 Gene

Trafficking protein particle complex 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC4 Gene

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

Relevant External Links for TRAPPC4 Gene

GeneLoc Exon Structure for
TRAPPC4
ECgene alternative splicing isoforms for
TRAPPC4

Expression for TRAPPC4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRAPPC4 Gene

Protein differential expression in normal tissues from HIPED for TRAPPC4 Gene

This gene is overexpressed in Bone (14.8) and Serum (10.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRAPPC4 Gene



Protein tissue co-expression partners for TRAPPC4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRAPPC4 Gene:

TRAPPC4

SOURCE GeneReport for Unigene cluster for TRAPPC4 Gene:

Hs.132760

Evidence on tissue expression from TISSUES for TRAPPC4 Gene

  • Nervous system(4.8)
  • Lung(4.4)
  • Blood(4.2)
genes like me logo Genes that share expression patterns with TRAPPC4: view

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 TRAPPC4 Gene

Orthologs for TRAPPC4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRAPPC4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRAPPC4 33 34
  • 100 (n)
oppossum
(Monodelphis domestica)
Mammalia TRAPPC4 34
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC4 34
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trappc4 33 16 34
  • 91.17 (n)
rat
(Rattus norvegicus)
Mammalia Trappc4 33
  • 90.72 (n)
dog
(Canis familiaris)
Mammalia TRAPPC4 33 34
  • 90.56 (n)
cow
(Bos Taurus)
Mammalia TRAPPC4 33 34
  • 90.41 (n)
chicken
(Gallus gallus)
Aves TRAPPC4 33 34
  • 78.54 (n)
lizard
(Anolis carolinensis)
Reptilia TRAPPC4 34
  • 88 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trappc4 33
  • 76.56 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.11434 33
zebrafish
(Danio rerio)
Actinopterygii trappc4 33 34
  • 75.95 (n)
zgc73260 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008106 33
  • 61.37 (n)
fruit fly
(Drosophila melanogaster)
Insecta Trs23 33 34
  • 61.03 (n)
worm
(Caenorhabditis elegans)
Secernentea F36D4.2 33
  • 53.24 (n)
trpp-4 34
  • 47 (a)
OneToOne
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0D12144g 33
  • 50.15 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR459W 33
  • 45.57 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRS23 33 34 36
  • 43.55 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G02280 33
  • 58.81 (n)
rice
(Oryza sativa)
Liliopsida Os07g0454700 33
  • 56.92 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU11085 33
  • 57.2 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes trs23 33
  • 56.77 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.7090 33
Species where no ortholog for TRAPPC4 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • 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)
  • 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)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TRAPPC4 Gene

ENSEMBL:
Gene Tree for TRAPPC4 (if available)
TreeFam:
Gene Tree for TRAPPC4 (if available)

Paralogs for TRAPPC4 Gene

No data available for Paralogs for TRAPPC4 Gene

Variants for TRAPPC4 Gene

Sequence variations from dbSNP and Humsavar for TRAPPC4 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000178354 -- 119,021,545(+) C/T intron_variant
rs1000250463 -- 119,021,935(+) C/T intron_variant
rs1000708180 -- 119,019,907(+) A/G intron_variant
rs1000730956 -- 119,017,219(+) G/A upstream_transcript_variant
rs1000893817 -- 119,024,149(+) A/C/G downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for TRAPPC4 Gene

Variant ID Type Subtype PubMed ID
nsv826101 CNV gain 20364138
nsv983067 CNV duplication 23825009

Variation tolerance for TRAPPC4 Gene

Residual Variation Intolerance Score: 25.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.37; 85.44% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRAPPC4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAPPC4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAPPC4 Gene

Disorders for TRAPPC4 Gene

Additional Disease Information for TRAPPC4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for TRAPPC4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRAPPC4 Gene

Publications for TRAPPC4 Gene

  1. Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics. (PMID: 10810093) Lai CH … Lin W (Genome research 2000) 2 3 4 58
  2. 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
  3. Crystal structure of human synbindin reveals two conformations of longin domain. (PMID: 18466758) Fan S … Gong W (Biochemical and biophysical research communications 2009) 3 22 58
  4. Single-cell expression profiling of dopaminergic neurons combined with association analysis identifies pyridoxal kinase as Parkinson's disease gene. (PMID: 20035503) Elstner M … Turnbull DM (Annals of neurology 2009) 3 44 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 TRAPPC4 Gene

Sources for TRAPPC4 Gene

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