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Aliases for VPS13C Gene

Aliases for VPS13C Gene

  • Vacuolar Protein Sorting 13 Homolog C 2 3
  • Vacuolar Protein Sorting 13 Homolog C (S. Cerevisiae) 2 5
  • Vacuolar Protein Sorting 13C (Yeast) 2
  • KIAA1421 4
  • PARK23 3

External Ids for VPS13C Gene

Previous GeneCards Identifiers for VPS13C Gene

  • GC15M059860
  • GC15M059931
  • GC15M062144
  • GC15M038966

Summaries for VPS13C Gene

Entrez Gene Summary for VPS13C Gene

  • This gene encodes a member of the vacuolar protein sorting-associated 13 gene family. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Oct 2010]

GeneCards Summary for VPS13C Gene

VPS13C (Vacuolar Protein Sorting 13 Homolog C) is a Protein Coding gene. Diseases associated with VPS13C include parkinson disease, juvenile, type 2 and choreoacanthocytosis. An important paralog of this gene is VPS13B.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VPS13C Gene

Genomics for VPS13C Gene

Regulatory Elements for VPS13C Gene

Promoters for VPS13C Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around VPS13C on UCSC Golden Path with GeneCards custom track

Genomic Location for VPS13C Gene

Chromosome:
15
Start:
61,852,389 bp from pter
End:
62,060,473 bp from pter
Size:
208,085 bases
Orientation:
Minus strand

Genomic View for VPS13C Gene

Genes around VPS13C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VPS13C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VPS13C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS13C Gene

Proteins for VPS13C Gene

  • Protein details for VPS13C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q709C8-VP13C_HUMAN
    Recommended name:
    Vacuolar protein sorting-associated protein 13C
    Protein Accession:
    Q709C8
    Secondary Accessions:
    • Q6ISR4
    • Q702P2
    • Q702P3
    • Q709C9
    • Q9NXN8
    • Q9P2C6

    Protein attributes for VPS13C Gene

    Size:
    3753 amino acids
    Molecular mass:
    422390 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA90972.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAA92659.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for VPS13C Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VPS13C Gene

Proteomics data for VPS13C Gene at MOPED

Post-translational modifications for VPS13C Gene

  • Ubiquitination at Lys 578, Lys 2155, Lys 2233, Lys 2304, Lys 2357, Lys 2777, Lys 3487, Lys 3496, Lys 3501, and Lys 3557
  • Modification sites at PhosphoSitePlus

Other Protein References for VPS13C Gene

No data available for DME Specific Peptides for VPS13C Gene

Domains & Families for VPS13C Gene

Protein Domains for VPS13C Gene

Suggested Antigen Peptide Sequences for VPS13C Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q709C8

UniProtKB/Swiss-Prot:

VP13C_HUMAN :
  • Belongs to the VPS13 family.
Family:
  • Belongs to the VPS13 family.
genes like me logo Genes that share domains with VPS13C: view

No data available for Gene Families for VPS13C Gene

Function for VPS13C Gene

Phenotypes for VPS13C Gene

genes like me logo Genes that share phenotypes with VPS13C: view

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for VPS13C Gene

Localization for VPS13C Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VPS13C Gene COMPARTMENTS Subcellular localization image for VPS13C gene
Compartment Confidence
extracellular 5
cytosol 2
endoplasmic reticulum 1
golgi apparatus 1
mitochondrion 1
nucleus 1

Gene Ontology (GO) - Cellular Components for VPS13C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IDA 26942284
GO:0005741 mitochondrial outer membrane IDA 26942284
GO:0005829 cytosol IDA 26942284
GO:0070062 extracellular exosome IDA 19056867
genes like me logo Genes that share ontologies with VPS13C: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for VPS13C Gene

Pathways & Interactions for VPS13C Gene

SuperPathways for VPS13C Gene

No Data Available

Interacting Proteins for VPS13C Gene

Gene Ontology (GO) - Biological Process for VPS13C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007005 mitochondrion organization IMP 26942284
GO:0042593 glucose homeostasis TAS 20081857
GO:0045053 protein retention in Golgi apparatus IBA --
genes like me logo Genes that share ontologies with VPS13C: view

No data available for Pathways by source and SIGNOR curated interactions for VPS13C Gene

Drugs & Compounds for VPS13C Gene

No Compound Related Data Available

Transcripts for VPS13C Gene

Unigene Clusters for VPS13C Gene

Vacuolar protein sorting 13 homolog C (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for VPS13C Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^
SP1:
SP2: - -
SP3:
SP4: - -
SP5:
SP6:

ExUns: 27 ^ 28 ^ 29 ^ 30 ^ 31 ^ 32 ^ 33 ^ 34 ^ 35 ^ 36 ^ 37 ^ 38 ^ 39 ^ 40 ^ 41 ^ 42 ^ 43 ^ 44 ^ 45 ^ 46 ^ 47 ^ 48 ^ 49 ^ 50 ^ 51 ^ 52 ^
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:

ExUns: 53 ^ 54 ^ 55 ^ 56 ^ 57 ^ 58 ^ 59 ^ 60a · 60b ^ 61 ^ 62 ^ 63 ^ 64 ^ 65 ^ 66a · 66b ^ 67 ^ 68 ^ 69 ^ 70 ^ 71 ^ 72 ^ 73 ^ 74 ^ 75 ^ 76 ^
SP1: -
SP2: -
SP3: -
SP4: -
SP5:
SP6:

ExUns: 77 ^ 78 ^ 79 ^ 80 ^ 81 ^ 82 ^ 83a · 83b ^ 84 ^ 85 ^
SP1: - -
SP2: - -
SP3:
SP4:
SP5:
SP6:

Relevant External Links for VPS13C Gene

GeneLoc Exon Structure for
VPS13C
ECgene alternative splicing isoforms for
VPS13C

Expression for VPS13C Gene

mRNA expression in normal human tissues for VPS13C Gene

Protein differential expression in normal tissues from HIPED for VPS13C Gene

This gene is overexpressed in Peripheral blood mononuclear cells (19.9) and Lymph node (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for VPS13C Gene



SOURCE GeneReport for Unigene cluster for VPS13C Gene Hs.511668

mRNA Expression by UniProt/SwissProt for VPS13C Gene

Q709C8-VP13C_HUMAN
Tissue specificity: Widely expressed.
genes like me logo Genes that share expression patterns with VPS13C: view

Protein tissue co-expression partners for VPS13C Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for VPS13C Gene

Orthologs for VPS13C Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for VPS13C Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VPS13C 35
  • 99.4 (n)
  • 99.12 (a)
VPS13C 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia VPS13C 36
  • 87 (a)
OneToOne
VPS13C 35
  • 89.67 (n)
  • 87.36 (a)
dog
(Canis familiaris)
Mammalia VPS13C 35
  • 91.07 (n)
  • 89.83 (a)
VPS13C 36
  • 86 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vps13c 16
Vps13c 35
  • 84.42 (n)
  • 86.61 (a)
Vps13c 36
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia VPS13C 36
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia VPS13C 36
  • 54 (a)
OneToOne
chicken
(Gallus gallus)
Aves VPS13C 35
  • 71.5 (n)
  • 69.24 (a)
VPS13C 36
  • 69 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia VPS13C 36
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia vps13c 35
  • 65.85 (n)
  • 64.52 (a)
zebrafish
(Danio rerio)
Actinopterygii CR388046.3 36
  • 59 (a)
OneToOne
LOC798746 35
  • 62.01 (n)
  • 60.8 (a)
fruit fly
(Drosophila melanogaster)
Insecta Vps13 36
  • 30 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea T08G11.1 36
  • 29 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes VPS13 36
  • 21 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 31 (a)
OneToMany
Species with no ortholog for VPS13C:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VPS13C Gene

ENSEMBL:
Gene Tree for VPS13C (if available)
TreeFam:
Gene Tree for VPS13C (if available)

Paralogs for VPS13C Gene

Paralogs for VPS13C Gene

(1) SIMAP similar genes for VPS13C Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with VPS13C: view

Variants for VPS13C Gene

Sequence variations from dbSNP and Humsavar for VPS13C Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs12595158 - 62,023,836(+) TTTTA(C/T)GTTTA intron-variant, nc-transcript-variant, reference, missense
rs3784634 - 61,967,438(-) CAAAA(A/G)GAAGC nc-transcript-variant, reference, missense
rs3784635 - 61,962,790(-) AAAAT(A/G)TTATT nc-transcript-variant, reference, missense
rs2303405 - 61,961,592(+) ACCTA(C/T)AAAGT nc-transcript-variant, reference, missense
rs8026956 - 61,951,827(+) ACCAG(C/T)GAAAT nc-transcript-variant, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for VPS13C Gene

Variant ID Type Subtype PubMed ID
dgv2393n71 CNV Loss 21882294
dgv152n21 CNV Gain 19592680
nsv521334 CNV Loss 19592680
dgv2394n71 CNV Loss 21882294
dgv2395n71 CNV Loss 21882294
dgv2396n71 CNV Loss 21882294
nsv457176 CNV Gain 19166990
esv2749762 CNV Deletion 23290073
nsv904295 CNV Loss 21882294
nsv471247 CNV Gain 18288195
nsv827348 CNV Gain 20364138
nsv457177 CNV Loss 19166990
esv2582405 CNV Deletion 19546169
esv273087 CNV Insertion 20981092
esv270546 CNV Insertion 20981092
esv1275705 CNV Insertion 17803354
nsv457178 CNV Loss 19166990

Variation tolerance for VPS13C Gene

Residual Variation Intolerance Score: 0.759% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 12.06; 93.77% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VPS13C Gene

HapMap Linkage Disequilibrium report
VPS13C
Human Gene Mutation Database (HGMD)
VPS13C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VPS13C Gene

Disorders for VPS13C Gene

MalaCards: The human disease database

(2) MalaCards diseases for VPS13C Gene - From: Orphanet and DISEASES

Disorder Aliases PubMed IDs
parkinson disease, juvenile, type 2
  • autosomal recessive juvenile parkinson disease 2
choreoacanthocytosis
  • neuroacanthocytosis
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for VPS13C

Genetic Association Database (GAD)
VPS13C
Human Genome Epidemiology (HuGE) Navigator
VPS13C
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VPS13C
genes like me logo Genes that share disorders with VPS13C: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VPS13C Gene

Publications for VPS13C Gene

  1. Genetic variation in GIPR influences the glucose and insulin responses to an oral glucose challenge. (PMID: 20081857) Saxena R. … Watanabe R.M. (Nat. Genet. 2010) 3 48 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. Large-scale meta-analysis of genome-wide association data identifies six new risk loci for Parkinson's disease. (PMID: 25064009) Nalls M.A. … Singleton A.B. (Nat. Genet. 2014) 3
  4. Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers. (PMID: 23382691) Lauc G. … Rudan I. (PLoS Genet. 2013) 3
  5. Genetic variants in GCKR, GIPR, ADCY5 and VPS13C and the risk of severe sulfonylurea-induced hypoglycaemia in patients with type 2 diabetes. (PMID: 22956255) Holstein J.D. … Holstein A. (Exp. Clin. Endocrinol. Diabetes 2013) 3

Products for VPS13C Gene

Sources for VPS13C Gene

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