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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SVIP Gene

protein-coding   GIFtS: 40
GCID: GC11M022799

small VCP/p97-interacting protein
 Explore 1 disease affiliated with
SVIP via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SVIP    

Aliases
for SVIP gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Small VCP/P97-Interacting Protein1 2
DKFZp313A24321

External Ids:    HGNC: 252381   Entrez Gene: 2580102   Ensembl: ENSG000001981687   UniProtKB: Q8NHG73   

Export aliases for SVIP gene to outside databases

Previous GC identifer: GC11M022527


Summaries
for SVIP gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
  --

Genomic Views
for SVIP gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000011.9  NC_018922.1  NT_009237.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SVIP gene promoter:
         Max1   E2F-1   E2F   POU2F1   POU3F1   POU2F1a   E4BP4   c-Myc   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SVIP

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SVIP


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11p14.2   Ensembl cytogenetic band:  11p14.3   HGNC cytogenetic band: 11p14.2

SVIP Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SVIP gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M022799:  view genomic region     (about GC identifiers)

Start:
 22,835,345 bp from pter      End:
 22,851,845 bp from pter
Size:
 16,501 bases      Orientation:
 minus strand

Proteins
for SVIP gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: SVIP_HUMAN, Q8NHG7 (See protein sequence)
Recommended Name: Small VCP/p97-interacting protein  
Size: 77 amino acids; 8443 Da
Subunit: Interacts with VCP (By similarity)
Subcellular location: Smooth endoplasmic reticulum membrane; Peripheral membrane protein (By similarity). Golgi
apparatus membrane; Peripheral membrane protein (By similarity). Cell membrane; Peripheral membrane protein (By
similarity)

Explore the universe of human proteins at neXtProt for SVIP: NX_Q8NHG7

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8NHG7

    • SVIP Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_683691.1  
    ENSEMBL proteins: 
     ENSP00000346130  

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    Uscn Proteins for SVIP

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139Golgi membrane IEA--
    GO:0005886plasma membrane IEA--
    GO:0030868smooth endoplasmic reticulum membrane IEA--


    SVIP for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for SVIP gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    ProtoNet protein and cluster: Q8NHG7

    UniProtKB/Swiss-Prot: SVIP_HUMAN, Q8NHG7
    Similarity: Belongs to the SVIP family


    Function
    for SVIP gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
    Products:            		 OriGene 3'-UTR Clone: SVIP
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    hsa-miR-125a-5p hsa-miR-34c-5p hsa-miR-449b hsa-miR-449a hsa-miR-34a hsa-miR-124 hsa-miR-670 hsa-miR-125b
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    Inhib. RNA
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    Pathways & Interactions
    for SVIP gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Protein processing in endoplasmic reticulum
    		Protein processing in endoplasmic reticulum1.00

    Pathway sources
    See GeneCards unified pathways
    Show all pathways



    1         Kegg Pathway  (Kegg details for SVIP):
        Protein processing in endoplasmic reticulum


    SVIP for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SVIP

    STRING Interaction Network Preview (showing 5 interactants - click image to see 14)

    5/14 Interacting proteins for SVIP (Q8NHG73 ENSP000003461304) via UniProtKB, MINT, STRING, and/or I2D (see all 14)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    VCPIP1Q96JH73, ENSP000003090314I2D: score=2 STRING: ENSP00000309031
    AMFRQ9UKV53, ENSP000002906494I2D: score=1 STRING: ENSP00000290649
    GOLGA1Q928053, ENSP000003626564I2D: score=1 STRING: ENSP00000362656
    UFD1LQ928903, ENSP000002632024I2D: score=1 STRING: ENSP00000263202
    VCPP550723, ENSP000003517774I2D: score=1 STRING: ENSP00000351777
    About this table

    Drugs & Compounds
    for SVIP gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SVIP
    Search CenterWatch for drugs/clinical trials and news about SVIP 

    Transcripts
    for SVIP gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
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    About This Section
    REFSEQ mRNAs for SVIP gene: 
    NM_148893.1  

    Unigene Cluster for SVIP:

    Small VCP/p97-interacting protein
    Hs.349096  [show with all ESTs]
    Unigene Representative Sequence: AL833119
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000525670 ENST00000354193(uc001mqp.4) ENST00000533774 ENST00000530199
    ENST00000529848

    miRNA
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    8/14 QIAGEN miScript miRNA Assays for microRNAs that regulate SVIP (see all 14):
    hsa-miR-125a-5p hsa-miR-34c-5p hsa-miR-449b hsa-miR-449a hsa-miR-34a hsa-miR-124 hsa-miR-670 hsa-miR-125b
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    Inhib. RNA
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    OriGene shRNA RFP: SVIP
    OriGene siRNA: SVIP
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    Primer
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    Additional cDNA sequence: 

    AF527534.1 AK095023.1 AL833119.1 

    10 DOTS entries:

    DT.113615  DT.101963268  DT.95276175  DT.95276178  DT.95276177  DT.91763411  DT.95245265  DT.100815512 
    DT.75138727  DT.95302395 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for SVIP    About this scheme

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


    ECgene alternative splicing isoforms for SVIP

    Expression
    for SVIP gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SVIP expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAAACATTCT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    SVIP expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Sclerotome cells (Primary Cell)Bone, Cartilage, Somite
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SVIP Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SVIP

    SOURCE GeneReport for Unigene cluster: Hs.349096
        SABiosciences Custom PCR Arrays for SVIP
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    In Situ
    Assay Products:     
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    Orthologs
    for SVIP gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the common ancestor of human and mouse.

    Orthologs for SVIP gene from 1/7 species (see all 7)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Svip1 , 5 small VCP/p97-interacting protein1, 5 77.92(n)1
    80.52(a)1    		   7 (32.91 cM)5
    757441  NM_001160345.11  NP_001153817.11 
     519971655 


    ENSEMBL Gene Tree for SVIP (if available)
    TreeFam Gene Tree for SVIP (if available) 

    Paralogs
    for SVIP gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    		  --

    Genomic Variants
    for SVIP gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/195 NCBI SNPs in SVIP are shown (see all 195)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 11 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs7120221,2
    		C,F,A,H,--22843155(-) AGGAAT/AGATTG 1 -- int134Minor allele frequency- A:0.43MN NS EA NA WA CSA 3357
    rs1923866481,2
    		--22843162(+) TCCTTC/TTACTT 1 -- int10--------
    rs1491068461,2
    		--22843176(+) GCCTTC/GAAAAA 1 -- int10--------
    rs10192161,2
    		C,F,A,H,--22843220(-) GAACTA/GTATTT 1 -- int1 ese318Minor allele frequency- G:0.12MN NS EA NA CSA WA 2406
    rs1462340741,2
    		--22843250(+) ATGAAC/GAAAAA 1 -- int10--------
    rs1836694771,2
    		--22843341(+) ATAGAA/TAAAAT 1 -- int10--------
    rs1389471661,2
    		--22843445(+) TTTGTC/TGGAGG 1 -- int10--------
    rs1426825811,2
    		--22843450(+) TGGAGC/GGGTAG 1 -- int10--------
    rs1880977211,2
    		--22843457(+) GTAGAA/TGAAGA 1 -- int10--------
    rs1918030121,2
    		--22843498(+) GTGAAC/GTTGGT 1 -- int10--------

    HapMap Linkage Disequilibrium report for SVIP (22835345 - 22851845 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SVIP: --

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    Disorders / Diseases
    for SVIP gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    SVIP for disorders           About GeneDecksing

    1 disease for SVIP:    About MalaCards
    cholecystitis


    Export disorders for SVIP gene to outside databases

    Publications
    for SVIP gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SVIP gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SVIP)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Regulation of ER-associated degradation via p97/VCP-interacting motif. (PubMed id 18793143)1, 3 Ballar P. and Fang S. (2008)
    2. Identification of SVIP as an endogenous inhibitor of endoplasmic reticulum-associated degradation. (PubMed id 17872946)1, 3 Ballar P....Fang S. (2007)
    3. SVIP is a novel VCP/p97-interacting protein whose expression causes cell vacuolation. (PubMed id 12529442)1, 3 Nagahama M....Tagaya M. (2003)
    4. SVIP induces localization of p97/VCP to the plasma an d lysosomal membranes and regulates autophagy. (PubMed id 21909394)1 Wang Y....Fang S. (2011)
    5. The structural and functional basis of the p97/valosi n-containing protein (VCP)-interacting motif (VIM): mutually exclusive binding of cofactors to the N-terminal domain of p97. (PubMed id 21914798)1 HAonzelmann P. and Schindelin H. (2011)
    6. Genome-wide association scan for survival on dialysis in African-Americans with type 2 diabetes. (PubMed id 21546767)1 Murea M....Freedman B.I. (2011)
    7. Defining the human deubiquitinating enzyme interactio n landscape. (PubMed id 19615732)1 Sowa M.E....Harper J.W. (2009)
    8. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)

    External Searches for SVIP gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing SVIP gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 258010 HGNC: 25238 Ensembl:ENSG00000198168 euGenes: HUgn258010 ECgene: SVIP Kegg: 258010
    H-InvDB: SVIP

    Other Databases showing SVIP gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SVIP gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SVIP Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for SVIP gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for SVIP gene:
    Search GeneIP for patents involving SVIP

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for SVIP gene

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    Advanced Cell Diagnostics
    About This Section

     
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