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Aliases for TRAPPC2L Gene

Aliases for TRAPPC2L Gene

  • Trafficking Protein Particle Complex 2 Like 2 3 5
  • Trafficking Protein Particle Complex Subunit 2-Like Protein 3
  • Trafficking Protein Particle Complex 2-Like 2
  • Hematopoietic Stem/Progenitor Cells 176 3
  • HSPC176 3

External Ids for TRAPPC2L Gene

Previous GeneCards Identifiers for TRAPPC2L Gene

  • GC16P087452
  • GC16P088923
  • GC16P074620

Summaries for TRAPPC2L Gene

Entrez Gene Summary for TRAPPC2L Gene

  • This gene encodes a protein that interacts with the tethering factor trafficking protein particle (TRAPP complex). TRAPP complexes mediate the contact between vescicles and target membranes, and thus, are involved in vescicle-mediated transport of proteins and lipids. The encoded protein is related to the X-linked trafficking protein particle complex 2. A related pseudogene is located on the X chromosome. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jan 2016]

GeneCards Summary for TRAPPC2L Gene

TRAPPC2L (Trafficking Protein Particle Complex 2 Like) is a Protein Coding gene. Among its related pathways are Metabolism of proteins and Transport to the Golgi and subsequent modification.

UniProtKB/Swiss-Prot for TRAPPC2L Gene

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

Additional gene information for TRAPPC2L Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAPPC2L Gene

Genomics for TRAPPC2L Gene

GeneHancer (GH) Regulatory Elements for TRAPPC2L Gene

Promoters and enhancers for TRAPPC2L 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
GH16I088854 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 550.8 +0.2 193 4.2 CLOCK MLX ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF207 ZNF143 FOS GALNS TRAPPC2L APRT CDT1 CYBA RNF166 ZC3H18 SNAI3 CBFA2T3
GH16I088779 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.3 -73.5 -73463 6.7 HDGF PKNOX1 SMAD1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B IRF4 PIEZO1 APRT ANKRD11 SNORD68 CDT1 TRAPPC2L GALNS ENSG00000259877 RPL13 CTU2
GH16I089216 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 12.8 +361.1 361095 2.6 PKNOX1 CLOCK MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 IRF4 ENSG00000259877 PIR52460 ZNF778 AFG3L1P TCF25 CDK10 TRAPPC2L PIEZO1 CTU2 ZNF276
GH16I087864 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.1 -986.9 -986851 8.8 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 SLC7A5 ZC3H18 BANP KLHDC4 ZCCHC14 CTU2 TRAPPC2L CA5A MAP1LC3B FBXO31
GH16I088809 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 10.4 -44.9 -44943 4.4 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF548 APRT ENSG00000259877 SNORD68 GALNS ANKRD11 LOC101927863 RPL13 ENSG00000260121 ZC3H18 ACSF3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRAPPC2L on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRAPPC2L gene promoter:

Genomic Locations for TRAPPC2L Gene

Genomic Locations for TRAPPC2L Gene
chr16:88,856,220-88,862,686
(GRCh38/hg38)
Size:
6,467 bases
Orientation:
Plus strand
chr16:88,922,628-88,929,094
(GRCh37/hg19)

Genomic View for TRAPPC2L Gene

Genes around TRAPPC2L on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAPPC2L Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAPPC2L Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAPPC2L Gene

Proteins for TRAPPC2L Gene

  • Protein details for TRAPPC2L Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UL33-TPC2L_HUMAN
    Recommended name:
    Trafficking protein particle complex subunit 2-like protein
    Protein Accession:
    Q9UL33
    Secondary Accessions:
    • B2R4M9
    • Q6ZTA7
    • Q9NZZ4

    Protein attributes for TRAPPC2L Gene

    Size:
    140 amino acids
    Molecular mass:
    16146 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 the heterodimer TRAPPC3-TRAPPC6A. Interacts with TRAPPC6A.
    SequenceCaution:
    • Sequence=BAC86686.1; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305};

    Alternative splice isoforms for TRAPPC2L Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRAPPC2L Gene

Post-translational modifications for TRAPPC2L Gene

No data available for DME Specific Peptides for TRAPPC2L Gene

Domains & Families for TRAPPC2L Gene

Gene Families for TRAPPC2L Gene

Protein Domains for TRAPPC2L Gene

Suggested Antigen Peptide Sequences for TRAPPC2L Gene

Graphical View of Domain Structure for InterPro Entry

Q9UL33

UniProtKB/Swiss-Prot:

TPC2L_HUMAN :
  • Belongs to the TRAPP small subunits family. Sedlin subfamily.
Family:
  • Belongs to the TRAPP small subunits family. Sedlin subfamily.
genes like me logo Genes that share domains with TRAPPC2L: view

Function for TRAPPC2L Gene

Molecular function for TRAPPC2L Gene

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

Phenotypes From GWAS Catalog for TRAPPC2L Gene

Gene Ontology (GO) - Molecular Function for TRAPPC2L 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 TRAPPC2L: view
genes like me logo Genes that share phenotypes with TRAPPC2L: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRAPPC2L Gene

Localization for TRAPPC2L Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRAPPC2L Gene

Cytoplasm, perinuclear region. Endoplasmic reticulum. Golgi apparatus.

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 TRAPPC2L gene
Compartment Confidence
cytosol 5
endoplasmic reticulum 3
golgi apparatus 2

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for TRAPPC2L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005622 intracellular IEA --
GO:0005737 cytoplasm IEA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005794 Golgi apparatus IEA --
genes like me logo Genes that share ontologies with TRAPPC2L: view

Pathways & Interactions for TRAPPC2L Gene

genes like me logo Genes that share pathways with TRAPPC2L: view

Gene Ontology (GO) - Biological Process for TRAPPC2L 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:0048208 COPII vesicle coating TAS --
GO:0051259 protein oligomerization IDA 21525244
genes like me logo Genes that share ontologies with TRAPPC2L: view

No data available for SIGNOR curated interactions for TRAPPC2L Gene

Drugs & Compounds for TRAPPC2L Gene

No Compound Related Data Available

Transcripts for TRAPPC2L Gene

Unigene Clusters for TRAPPC2L Gene

Trafficking protein particle complex 2-like:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRAPPC2L Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b ^ 6a · 6b · 6c · 6d · 6e · 6f · 6g
SP1: - - - - - -
SP2: - - - - - -
SP3: - - - - - - -
SP4: - - - - - - -
SP5: - - - - -
SP6: - - -
SP7: - - - - - - - -
SP8: - -
SP9: - - - - -
SP10: -
SP11: -

Relevant External Links for TRAPPC2L Gene

GeneLoc Exon Structure for
TRAPPC2L
ECgene alternative splicing isoforms for
TRAPPC2L

Expression for TRAPPC2L Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRAPPC2L Gene

Protein differential expression in normal tissues from HIPED for TRAPPC2L Gene

This gene is overexpressed in Peripheral blood mononuclear cells (32.0) and Placenta (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TRAPPC2L Gene



Protein tissue co-expression partners for TRAPPC2L Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRAPPC2L Gene:

TRAPPC2L

SOURCE GeneReport for Unigene cluster for TRAPPC2L Gene:

Hs.461722

mRNA Expression by UniProt/SwissProt for TRAPPC2L Gene:

Q9UL33-TPC2L_HUMAN
Tissue specificity: Expressed in testis, liver, bladder, lung, spleen and brain, several cell lines and primary chondrocytes cell line.

Evidence on tissue expression from TISSUES for TRAPPC2L Gene

  • Nervous system(4.7)
  • Eye(4.2)
  • Blood(4.1)
genes like me logo Genes that share expression patterns with TRAPPC2L: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRAPPC2L Gene

Orthologs for TRAPPC2L Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TRAPPC2L Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRAPPC2L 33 34
  • 99.52 (n)
oppossum
(Monodelphis domestica)
Mammalia TRAPPC2L 34
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRAPPC2L 33 34
  • 89.21 (n)
rat
(Rattus norvegicus)
Mammalia Trappc2l 33
  • 89.21 (n)
dog
(Canis familiaris)
Mammalia TRAPPC2L 33 34
  • 88.97 (n)
mouse
(Mus musculus)
Mammalia Trappc2l 33 16 34
  • 88.97 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRAPPC2L 34
  • 71 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRAPPC2L 33 34
  • 84.41 (n)
lizard
(Anolis carolinensis)
Reptilia TRAPPC2L 34
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trappc2l 33
  • 78.18 (n)
zebrafish
(Danio rerio)
Actinopterygii trappc2l 33
  • 78.1 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG9067 33 34
  • 63.68 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP013488 33
  • 61.98 (n)
worm
(Caenorhabditis elegans)
Secernentea T10F2.5 34
  • 31 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G20930 33
  • 55.39 (n)
rice
(Oryza sativa)
Liliopsida Os09g0541500 33
  • 54.39 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6514 34
  • 59 (a)
OneToOne
Species where no ortholog for TRAPPC2L was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • bread mold (Neurospora crassa)
  • 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 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 TRAPPC2L Gene

ENSEMBL:
Gene Tree for TRAPPC2L (if available)
TreeFam:
Gene Tree for TRAPPC2L (if available)

Paralogs for TRAPPC2L Gene

Pseudogenes.org Pseudogenes for TRAPPC2L Gene

genes like me logo Genes that share paralogs with TRAPPC2L: view

No data available for Paralogs for TRAPPC2L Gene

Variants for TRAPPC2L Gene

Sequence variations from dbSNP and Humsavar for TRAPPC2L Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs116702472 likely-benign, Morquio syndrome 88,856,969(+) A/G genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs144789309 likely-benign, Morquio syndrome 88,856,945(+) G/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs369448232 uncertain-significance, Morquio syndrome 88,856,931(+) C/T genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs763093375 uncertain-significance, Morquio syndrome 88,856,825(+) C/G genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs781533703 uncertain-significance, Morquio syndrome 88,856,887(+) G/A/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for TRAPPC2L Gene

Variant ID Type Subtype PubMed ID
nsv952071 CNV deletion 24416366
nsv819907 CNV gain 19587683
nsv573674 CNV gain 21841781
nsv521217 CNV loss 19592680
nsv482951 CNV loss 15286789
nsv471115 CNV loss 18288195
nsv1063441 CNV loss 25217958
nsv1063024 CNV gain 25217958
nsv1061256 CNV gain 25217958
esv3639561 CNV gain 21293372
esv3639555 CNV gain 21293372
dgv37n68 CNV loss 17160897
dgv3065n100 CNV gain 25217958

Variation tolerance for TRAPPC2L Gene

Residual Variation Intolerance Score: 59.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.19; 69.73% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRAPPC2L Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAPPC2L

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAPPC2L Gene

Disorders for TRAPPC2L Gene

Additional Disease Information for TRAPPC2L

No disorders were found for TRAPPC2L Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRAPPC2L Gene

Publications for TRAPPC2L 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) 2 3 4 58
  2. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PMID: 11042152) Zhang QH … Chen Z (Genome research 2000) 2 3 4 58
  3. TRAPPC2L is a novel, highly conserved TRAPP-interacting protein. (PMID: 19416478) Scrivens PJ … Sacher M (Traffic (Copenhagen, Denmark) 2009) 3 4 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. An organelle-specific protein landscape identifies novel diseases and molecular mechanisms. (PMID: 27173435) Boldt K … UK10K Rare Diseases Group (Nature communications 2016) 3 58

Products for TRAPPC2L Gene

Sources for TRAPPC2L Gene

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