Aliases for TRAPPC13 Gene

Aliases for TRAPPC13 Gene

  • Trafficking Protein Particle Complex Subunit 13 2 3 4
  • Trafficking Protein Particle Complex 13 2 3 5
  • Trs65-Related 2 3
  • C5orf44 3 4
  • REV7-Interacting Novel NHEJ Regulator 1 3
  • Chromosome 5 Open Reading Frame 44 2
  • UPF0533 Protein C5orf44 3
  • TRAPPC13 5
  • FLJ13611 2
  • MGC48585 2
  • SHLD3 3

External Ids for TRAPPC13 Gene

Previous HGNC Symbols for TRAPPC13 Gene

  • C5orf44

Previous GeneCards Identifiers for TRAPPC13 Gene

  • GC05P064923
  • GC05P064925

Summaries for TRAPPC13 Gene

GeneCards Summary for TRAPPC13 Gene

TRAPPC13 (Trafficking Protein Particle Complex Subunit 13) is a Protein Coding gene. Among its related pathways are Vesicle-mediated transport and RAB GEFs exchange GTP for GDP on RABs.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TRAPPC13 Gene

Genomics for TRAPPC13 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TRAPPC13 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 TRAPPC13 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TRAPPC13

Genomic Locations for TRAPPC13 Gene

Latest Assembly
chr5:65,625,004-65,666,233
(GRCh38/hg38)
Size:
41,230 bases
Orientation:
Plus strand

Previous Assembly
chr5:64,920,854-64,962,060
(GRCh37/hg19 by Entrez Gene)
Size:
41,207 bases
Orientation:
Plus strand

chr5:64,920,543-64,962,060
(GRCh37/hg19 by Ensembl)
Size:
41,518 bases
Orientation:
Plus strand

Genomic View for TRAPPC13 Gene

Genes around TRAPPC13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAPPC13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAPPC13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAPPC13 Gene

Proteins for TRAPPC13 Gene

  • Protein details for TRAPPC13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A5PLN9-TPC13_HUMAN
    Recommended name:
    Trafficking protein particle complex subunit 13
    Protein Accession:
    A5PLN9
    Secondary Accessions:
    • Q17RZ9
    • Q49A23
    • Q4JHG0
    • Q6MZG4
    • Q8TCM2
    • Q9H8I3

    Protein attributes for TRAPPC13 Gene

    Size:
    417 amino acids
    Molecular mass:
    46524 Da
    Quaternary structure:
    • Part of the multisubunit TRAPP (transport protein particle) complex.
    SequenceCaution:
    • Sequence=AAH47475.1; Type=Miscellaneous discrepancy; Note=Wrong choice of CDS.; Evidence={ECO:0000305}; Sequence=BAB14633.1; Type=Erroneous termination; Note=Truncated C-terminus.; Evidence={ECO:0000305};
    Miscellaneous:
    • [Isoform 5]: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.

    Alternative splice isoforms for TRAPPC13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRAPPC13 Gene

Post-translational modifications for TRAPPC13 Gene

  • Ubiquitination at Lys165 and Lys264
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRAPPC13 Gene

Domains & Families for TRAPPC13 Gene

Gene Families for TRAPPC13 Gene

Protein Domains for TRAPPC13 Gene

InterPro:

Suggested Antigen Peptide Sequences for TRAPPC13 Gene

GenScript: Design optimal peptide antigens:
  • C5orf44 protein (B7ZLB5_HUMAN)
  • C5orf44 protein (B7ZLB7_HUMAN)
  • UPF0533 protein C5orf44 (CE044_HUMAN)

Graphical View of Domain Structure for InterPro Entry

A5PLN9

UniProtKB/Swiss-Prot:

TPC13_HUMAN :
  • Belongs to the TRAPPC13 family.
Family:
  • Belongs to the TRAPPC13 family.
genes like me logo Genes that share domains with TRAPPC13: view

Function for TRAPPC13 Gene

Phenotypes From GWAS Catalog for TRAPPC13 Gene

Gene Ontology (GO) - Molecular Function for TRAPPC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21453443
genes like me logo Genes that share ontologies with TRAPPC13: view
genes like me logo Genes that share phenotypes with TRAPPC13: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRAPPC13

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRAPPC13 Gene

Localization for TRAPPC13 Gene

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 TRAPPC13 gene
Compartment Confidence
cytosol 4
plasma membrane 2
nucleus 2
cytoskeleton 1
endoplasmic reticulum 1
endosome 1
golgi apparatus 1
mitochondrion 0
lysosome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRAPPC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
GO:1990072 TRAPPIII protein complex IBA 21873635
genes like me logo Genes that share ontologies with TRAPPC13: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TRAPPC13 Gene

Pathways & Interactions for TRAPPC13 Gene

genes like me logo Genes that share pathways with TRAPPC13: view

Pathways by source for TRAPPC13 Gene

Gene Ontology (GO) - Biological Process for TRAPPC13 Gene

None

No data available for SIGNOR curated interactions for TRAPPC13 Gene

Drugs & Compounds for TRAPPC13 Gene

No Compound Related Data Available

Transcripts for TRAPPC13 Gene

mRNA/cDNA for TRAPPC13 Gene

6 REFSEQ mRNAs :
18 NCBI additional mRNA sequence :
12 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 TRAPPC13

Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC13 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b · 10c ^ 11a · 11b · 11c ^ 12a · 12b ^ 13a · 13b · 13c · 13d ^ 14a · 14b ·
SP1: - - -
SP2: - - -
SP3: - - -
SP4: - - -
SP5: - - -
SP6: -
SP7: -
SP8:
SP9:
SP10:

ExUns: 14c · 14d
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:

Relevant External Links for TRAPPC13 Gene

GeneLoc Exon Structure for
TRAPPC13

Expression for TRAPPC13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TRAPPC13 Gene

Protein differential expression in normal tissues from HIPED for TRAPPC13 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (28.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TRAPPC13 Gene



Protein tissue co-expression partners for TRAPPC13 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TRAPPC13

SOURCE GeneReport for Unigene cluster for TRAPPC13 Gene:

Hs.591760

Evidence on tissue expression from TISSUES for TRAPPC13 Gene

  • Nervous system(4.7)
  • Intestine(4.2)
genes like me logo Genes that share expression patterns with TRAPPC13: view

Primer products for research

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 TRAPPC13 Gene

Orthologs for TRAPPC13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRAPPC13 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia TRAPPC13 29
  • 99.6 (n)
C5ORF44 30
  • 99 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia TRAPPC13 30
  • 94 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia TRAPPC13 29 30
  • 93.76 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia TRAPPC13 29 30
  • 93.54 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Trappc13 29
  • 89.31 (n)
Mouse
(Mus musculus)
Mammalia Trappc13 29 16 30
  • 89 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC13 30
  • 77 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CZH5ORF44 29 30
  • 82.78 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia TRAPPC13 30
  • 92 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia trappc13 29
  • 77.18 (n)
Str.3852 29
African clawed frog
(Xenopus laevis)
Amphibia Xl.2220 29
Zebrafish
(Danio rerio)
Actinopterygii trappc13 29 30
  • 72.82 (n)
OneToOne
sbcb318 29
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005561 29
  • 53.55 (n)
Fruit Fly
(Drosophila melanogaster)
Insecta CG4953 29 30
  • 50.34 (n)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea C56C10.7 29 30
  • 55.38 (n)
OneToOne
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT2G47960 29
  • 47.81 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 51 (a)
OneToOne
Bread mold
(Neurospora crassa)
Ascomycetes NCU01664 29
Species where no ortholog for TRAPPC13 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • Fission Yeast (Schizosaccharomyces pombe)
  • 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)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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 TRAPPC13 Gene

ENSEMBL:
Gene Tree for TRAPPC13 (if available)
TreeFam:
Gene Tree for TRAPPC13 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TRAPPC13: view image
Alliance of Genome Resources:
Additional Orthologs for TRAPPC13

Paralogs for TRAPPC13 Gene

(1) SIMAP similar genes for TRAPPC13 Gene using alignment to 4 proteins:

  • TPC13_HUMAN
  • D6RB83_HUMAN
  • F5GXC3_HUMAN
  • H0YBF8_HUMAN

Pseudogenes.org Pseudogenes for TRAPPC13 Gene

genes like me logo Genes that share paralogs with TRAPPC13: view

No data available for Paralogs for TRAPPC13 Gene

Variants for TRAPPC13 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TRAPPC13 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 TRAPPC13 Gene

Variant ID Type Subtype PubMed ID
esv3425811 CNV insertion 20981092
esv3894204 CNV loss 25118596

Variation tolerance for TRAPPC13 Gene

Residual Variation Intolerance Score: 46.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.77; 33.46% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRAPPC13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAPPC13
Leiden Open Variation Database (LOVD)
TRAPPC13

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TRAPPC13 Gene

Disorders for TRAPPC13 Gene

Additional Disease Information for TRAPPC13

No disorders were found for TRAPPC13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRAPPC13 Gene

Publications for TRAPPC13 Gene

  1. A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility. (PMID: 23394947) Bassik MC … Weissman JS (Cell 2013) 2 3
  2. Organization and assembly of the TRAPPII complex. (PMID: 21453443) Choi C … Conibear E (Traffic (Copenhagen, Denmark) 2011) 3 4
  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
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  5. Systematic mapping of genetic interactions for de novo fatty acid synthesis identifies C12orf49 as a regulator of lipid metabolism. (PMID: 32694731) Aregger M … Moffat J (Nature metabolism 2020) 3

Products for TRAPPC13 Gene

Sources for TRAPPC13 Gene