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Aliases for VPS25 Gene

Aliases for VPS25 Gene

  • Vacuolar Protein Sorting 25 Homolog 2 3 5
  • Dermal Papilla-Derived Protein 9 3 4
  • ELL-Associated Protein Of 20 KDa 3 4
  • ESCRT-II Complex Subunit VPS25 3 4
  • DERP9 3 4
  • EAP20 3 4
  • Vacuolar Protein Sorting 25 Homolog (S. Cerevisiae) 2
  • Vacuolar Protein-Sorting-Associated Protein 25 3
  • Vacuolar Protein Sorting 25 (Yeast) 2
  • HVps25 4
  • FAP20 3

External Ids for VPS25 Gene

Previous GeneCards Identifiers for VPS25 Gene

  • GC17P038179
  • GC17P040925
  • GC17P036689

Summaries for VPS25 Gene

Entrez Gene Summary for VPS25 Gene

  • This gene encodes a protein that is a subunit of the endosomal sorting complex required for transport II (ESCRT-II). This protein complex functions in sorting of ubiquitinated membrane proteins during endocytosis. A pseudogene of this gene is present on chromosome 1. [provided by RefSeq, Jul 2013]

GeneCards Summary for VPS25 Gene

VPS25 (Vacuolar Protein Sorting 25 Homolog) is a Protein Coding gene. Among its related pathways are Delta508-CFTR traffic / Sorting endosome formation in CF and Vesicle-mediated transport. GO annotations related to this gene include protein homodimerization activity and protein N-terminus binding.

UniProtKB/Swiss-Prot for VPS25 Gene

  • Component of the ESCRT-II complex (endosomal sorting complex required for transport II), which is required for multivesicular body (MVB) formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation. The ESCRT-II complex is probably involved in the recruitment of the ESCRT-III complex. The ESCRT-II complex may also play a role in transcription regulation, possibly via its interaction with ELL. The ESCRT-II complex may be involved in facilitating the budding of certain RNA viruses.

Gene Wiki entry for VPS25 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VPS25 Gene

Genomics for VPS25 Gene

Regulatory Elements for VPS25 Gene

Enhancers for VPS25 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
GH17G042666 1.6 Ensembl ENCODE dbSUPER 21.4 -106.0 -105965 2.1 PKNOX1 ARNT MLX CREB3L1 SIN3A DMAP1 YY1 FOS JUNB REST RETREG3 CNTNAP1 VPS25 TUBG2 DHX8 HMGN1P29 TUBG1 PSMC3IP HMGN2P15 RAMP2-AS1
GH17G043366 1.7 Ensembl ENCODE dbSUPER 13.2 +595.3 595279 4.0 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC TBX21 SSRP1 NBR2 DHX8 HMGN1P29 LINC00910 ASB16-AS1 ENSG00000267340 ENSG00000267002 PSME3 NBR1 MEOX1
GH17G042623 1.5 Ensembl ENCODE dbSUPER 13.3 -149.2 -149233 1.9 PKNOX1 ATF1 CREB3L1 ARNT TCF12 GTF3C2 ZNF766 GATA2 ZNF143 FOS DHX8 TUBG2 HMGN1P29 RETREG3 VPS25 PSME3 ENSG00000267758 LINC00910 WNK4 ATP5LP7
GH17G042672 1.5 ENCODE dbSUPER 11.4 -94.7 -94739 11.4 MLX CREB3L1 ZFP64 DMAP1 YBX1 FEZF1 YY1 SLC30A9 ZNF143 ZNF263 CNTNAP1 TUBG2 ENSG00000267002 ENSG00000259623 HMGN2P15 MLX ENSG00000267765 ENSG00000267340 HSD17B1P1 MEOX1
GH17G042669 1.3 Ensembl ENCODE dbSUPER 11.3 -102.4 -102411 3.4 HDAC1 NFXL1 EGR1 SCRT2 EGR2 ZNF263 MIER1 CEBPB REST MAFF PSMC3IP RETREG3 TUBG1 HMGN2P15 RAMP2 RAMP2-AS1 VPS25 TUBG2 NAGLU NBR2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around VPS25 on UCSC Golden Path with GeneCards custom track

Promoters for VPS25 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000094460 164 1201 HDGF PKNOX1 MLX CREB3L1 ARNT ZFP64 WRNIP1 ARID4B SIN3A DMAP1

Genomic Location for VPS25 Gene

Chromosome:
17
Start:
42,773,436 bp from pter
End:
42,779,600 bp from pter
Size:
6,165 bases
Orientation:
Plus strand

Genomic View for VPS25 Gene

Genes around VPS25 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VPS25 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VPS25 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS25 Gene

Proteins for VPS25 Gene

  • Protein details for VPS25 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BRG1-VPS25_HUMAN
    Recommended name:
    Vacuolar protein-sorting-associated protein 25
    Protein Accession:
    Q9BRG1
    Secondary Accessions:
    • B2R581

    Protein attributes for VPS25 Gene

    Size:
    176 amino acids
    Molecular mass:
    20748 Da
    Quaternary structure:
    • Component of a complex at least composed of ELL, SNF8/EAP30, VPS25/EAP20 and VPS36/EAP45 (By similarity). Component of the endosomal sorting complex required for transport II (ESCRT-II), composed of SNF8, VPS36 and 2 copies of VPS25. Interacts with CFTR; the interaction requires misfolded CFTR. Interacts (via C-terminal half) with the ESCRT-III subunit CHMP6 (via N-terminal half).

    Three dimensional structures from OCA and Proteopedia for VPS25 Gene

neXtProt entry for VPS25 Gene

Post-translational modifications for VPS25 Gene

  • Ubiquitination at posLast=6464
  • Modification sites at PhosphoSitePlus

Other Protein References for VPS25 Gene

No data available for DME Specific Peptides for VPS25 Gene

Domains & Families for VPS25 Gene

Gene Families for VPS25 Gene

Protein Domains for VPS25 Gene

Suggested Antigen Peptide Sequences for VPS25 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BRG1

UniProtKB/Swiss-Prot:

VPS25_HUMAN :
  • Belongs to the VPS25 family.
Family:
  • Belongs to the VPS25 family.
genes like me logo Genes that share domains with VPS25: view

Function for VPS25 Gene

Molecular function for VPS25 Gene

UniProtKB/Swiss-Prot Function:
Component of the ESCRT-II complex (endosomal sorting complex required for transport II), which is required for multivesicular body (MVB) formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation. The ESCRT-II complex is probably involved in the recruitment of the ESCRT-III complex. The ESCRT-II complex may also play a role in transcription regulation, possibly via its interaction with ELL. The ESCRT-II complex may be involved in facilitating the budding of certain RNA viruses.

Gene Ontology (GO) - Molecular Function for VPS25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IBA --
GO:0005515 protein binding IPI 14505570
GO:0042803 protein homodimerization activity IPI 14519844
GO:0047485 protein N-terminus binding IPI 16973552
genes like me logo Genes that share ontologies with VPS25: view
genes like me logo Genes that share phenotypes with VPS25: view

Animal Models for VPS25 Gene

MGI Knock Outs for VPS25:

Animal Model Products

CRISPR Products

miRNA for VPS25 Gene

miRTarBase miRNAs that target VPS25

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VPS25 Gene

Localization for VPS25 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VPS25 Gene

Cytoplasm. Endosome membrane. Nucleus, nucleoplasm. Note=Distributes diffusely throughout the cytoplasm and nucleoplasm, but exhibits a punctate distribution on coexpression with CHMP6.

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 VPS25 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 5
endosome 5
lysosome 1

Gene Ontology (GO) - Cellular Components for VPS25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000814 ESCRT II complex TAS 20588296
GO:0005634 nucleus IDA,IEA 16371348
GO:0005654 nucleoplasm IEA --
GO:0005737 cytoplasm IDA,IEA 16973552
GO:0005768 endosome IEA --
genes like me logo Genes that share ontologies with VPS25: view

Pathways & Interactions for VPS25 Gene

genes like me logo Genes that share pathways with VPS25: view

Pathways by source for VPS25 Gene

Gene Ontology (GO) - Biological Process for VPS25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006810 transport IEA --
GO:0015031 protein transport IEA --
GO:0016197 endosomal transport TAS --
genes like me logo Genes that share ontologies with VPS25: view

No data available for SIGNOR curated interactions for VPS25 Gene

Drugs & Compounds for VPS25 Gene

No Compound Related Data Available

Transcripts for VPS25 Gene

Unigene Clusters for VPS25 Gene

Vacuolar protein sorting 25 homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for VPS25 Gene

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

Relevant External Links for VPS25 Gene

GeneLoc Exon Structure for
VPS25
ECgene alternative splicing isoforms for
VPS25

Expression for VPS25 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for VPS25 Gene

Protein differential expression in normal tissues from HIPED for VPS25 Gene

This gene is overexpressed in Salivary gland (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for VPS25 Gene



Protein tissue co-expression partners for VPS25 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of VPS25 Gene:

VPS25

SOURCE GeneReport for Unigene cluster for VPS25 Gene:

Hs.500165

mRNA Expression by UniProt/SwissProt for VPS25 Gene:

Q9BRG1-VPS25_HUMAN
Tissue specificity: Expressed at the mRNA level in kidney, liver, pancreas, and placenta. Lower levels of expression are found in heart, skeletal muscle, brain and lung.

Evidence on tissue expression from TISSUES for VPS25 Gene

  • Nervous system(4.7)
  • Skin(4.3)
  • Lung(2)
genes like me logo Genes that share expression patterns with VPS25: 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 VPS25 Gene

Orthologs for VPS25 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VPS25 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VPS25 34 35
  • 99.43 (n)
dog
(Canis familiaris)
Mammalia VPS25 34
  • 95.27 (n)
oppossum
(Monodelphis domestica)
Mammalia VPS25 35
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia VPS25 34 35
  • 93.56 (n)
rat
(Rattus norvegicus)
Mammalia Vps25 34
  • 93.37 (n)
mouse
(Mus musculus)
Mammalia Vps25 34 16 35
  • 92.61 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia VPS25 35
  • 51 (a)
OneToOne
chicken
(Gallus gallus)
Aves VPS25 34
  • 74.14 (n)
lizard
(Anolis carolinensis)
Reptilia VPS25 35
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia vps25 34
  • 74.52 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.7309 34
zebrafish
(Danio rerio)
Actinopterygii vps25 34 35
  • 72.99 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.3769 34
fruit fly
(Drosophila melanogaster)
Insecta Vps25 34 35
  • 53.61 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011497 34
  • 50.62 (n)
worm
(Caenorhabditis elegans)
Secernentea vps-25 34 35
  • 48.85 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes VPS25 35 37
  • 27 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons VPS25 34
  • 47.84 (n)
rice
(Oryza sativa)
Liliopsida Os01g0658500 34
  • 45.56 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU03898 34
  • 51.07 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes vps25 34
  • 48.37 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 44 (a)
OneToOne
Species where no ortholog for VPS25 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • 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)
  • 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)
  • 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 VPS25 Gene

ENSEMBL:
Gene Tree for VPS25 (if available)
TreeFam:
Gene Tree for VPS25 (if available)

Paralogs for VPS25 Gene

Pseudogenes.org Pseudogenes for VPS25 Gene

genes like me logo Genes that share paralogs with VPS25: view

No data available for Paralogs for VPS25 Gene

Variants for VPS25 Gene

Sequence variations from dbSNP and Humsavar for VPS25 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1000801135 -- 42,773,602(+) GATGC(A/T)TCATA intron-variant
rs1001297272 -- 42,771,730(+) TGGGC(A/G)GATCA upstream-variant-2KB
rs1001488901 -- 42,776,778(+) TTCTT(A/G)ACCCA intron-variant, utr-variant-3-prime
rs1001754836 -- 42,777,764(+) GTATA(C/G)TGTTT intron-variant, downstream-variant-500B, upstream-variant-2KB
rs1002086122 -- 42,777,024(+) GACCA(A/G)CCTGG intron-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for VPS25 Gene

Variant ID Type Subtype PubMed ID
esv33998 OTHER inversion 15654335
nsv1146669 OTHER inversion 26484159
nsv827998 CNV loss 20364138
nsv833450 CNV loss 17160897

Variation tolerance for VPS25 Gene

Residual Variation Intolerance Score: 41.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.67; 31.90% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VPS25 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VPS25

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VPS25 Gene

Disorders for VPS25 Gene

Relevant External Links for VPS25

Genetic Association Database (GAD)
VPS25
Human Genome Epidemiology (HuGE) Navigator
VPS25
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VPS25

No disorders were found for VPS25 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for VPS25 Gene

Publications for VPS25 Gene

  1. Human CHMP6, a myristoylated ESCRT-III protein, interacts directly with an ESCRT-II component EAP20 and regulates endosomal cargo sorting. (PMID: 15511219) Yorikawa C. … Maki M. (Biochem. J. 2005) 2 3 4 64
  2. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  3. Structure and function of the ESCRT-II-III interface in multivesicular body biogenesis. (PMID: 19686684) Im Y.J. … Hurley J.H. (Dev. Cell 2009) 3 4 64
  4. Integrated structural model and membrane targeting mechanism of the human ESCRT-II complex. (PMID: 18539118) Im Y.J. … Hurley J.H. (Dev. Cell 2008) 3 4 64
  5. Human ESCRT-II complex and its role in human immunodeficiency virus type 1 release. (PMID: 16973552) Langelier C. … Sundquist W.I. (J. Virol. 2006) 3 4 64

Products for VPS25 Gene

Sources for VPS25 Gene

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