Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYVN1 (synoviolin 1)

Identity

Alias_namessynovial apoptosis inhibitor 1
Alias_symbol (synonym)HRD1
DER3
Other alias
HGNC (Hugo) SYVN1
LocusID (NCBI) 84447
Atlas_Id 47715
Location 11q13.1  [Link to chromosome band 11q13]
Location_base_pair Starts at 65127279 and ends at 65134532 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ACTA1 (1q42.13) / SYVN1 (11q13.1)PCGF3 (4p16.3) / SYVN1 (11q13.1)SYVN1 (11q13.1) / MRPL49 (11q13.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SYVN1   20738
Cards
Entrez_Gene (NCBI)SYVN1  84447  synoviolin 1
AliasesDER3; HRD1
GeneCards (Weizmann)SYVN1
Ensembl hg19 (Hinxton)ENSG00000162298 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000162298 [Gene_View]  chr11:65127279-65134532 [Contig_View]  SYVN1 [Vega]
ICGC DataPortalENSG00000162298
TCGA cBioPortalSYVN1
AceView (NCBI)SYVN1
Genatlas (Paris)SYVN1
WikiGenes84447
SOURCE (Princeton)SYVN1
Genetics Home Reference (NIH)SYVN1
Genomic and cartography
GoldenPath hg38 (UCSC)SYVN1  -     chr11:65127279-65134532 -  11q13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYVN1  -     11q13.1   [Description]    (hg19-Feb_2009)
EnsemblSYVN1 - 11q13.1 [CytoView hg19]  SYVN1 - 11q13.1 [CytoView hg38]
Mapping of homologs : NCBISYVN1 [Mapview hg19]  SYVN1 [Mapview hg38]
OMIM608046   
Gene and transcription
Genbank (Entrez)AA864844 AB058713 AB085847 AF317634 AK074148
RefSeq transcript (Entrez)NM_032431 NM_172230
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SYVN1
Cluster EST : UnigeneHs.75859 [ NCBI ]
CGAP (NCI)Hs.75859
Alternative Splicing GalleryENSG00000162298
Gene ExpressionSYVN1 [ NCBI-GEO ]   SYVN1 [ EBI - ARRAY_EXPRESS ]   SYVN1 [ SEEK ]   SYVN1 [ MEM ]
Gene Expression Viewer (FireBrowse)SYVN1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84447
GTEX Portal (Tissue expression)SYVN1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86TM6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86TM6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86TM6
Splice isoforms : SwissVarQ86TM6
Catalytic activity : Enzyme2.3.2.27 [ Enzyme-Expasy ]   2.3.2.272.3.2.27 [ IntEnz-EBI ]   2.3.2.27 [ BRENDA ]   2.3.2.27 [ KEGG ]   
PhosPhoSitePlusQ86TM6
Domaine pattern : Prosite (Expaxy)ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)E3_lig_synoviolin/Hrd1    Znf_RING    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)zf-RING_2 (PF13639)   
Domain families : Pfam (NCBI)pfam13639   
Domain families : Smart (EMBL)RING (SM00184)  
Conserved Domain (NCBI)SYVN1
DMDM Disease mutations84447
Blocks (Seattle)SYVN1
SuperfamilyQ86TM6
Human Protein AtlasENSG00000162298
Peptide AtlasQ86TM6
HPRD07618
IPIIPI00166996   IPI00396584   IPI00172510   IPI00902504   IPI00640607   IPI00983790   IPI00977943   IPI00977251   IPI00983104   
Protein Interaction databases
DIP (DOE-UCLA)Q86TM6
IntAct (EBI)Q86TM6
FunCoupENSG00000162298
BioGRIDSYVN1
STRING (EMBL)SYVN1
ZODIACSYVN1
Ontologies - Pathways
QuickGOQ86TM6
Ontology : AmiGOHrd1p ubiquitin ligase complex  Hrd1p ubiquitin ligase ERAD-L complex  protein binding  nucleoplasm  endoplasmic reticulum  endoplasmic reticulum  endoplasmic reticulum membrane  smooth endoplasmic reticulum  zinc ion binding  membrane  protein ubiquitination  protein ubiquitination  protein N-linked glycosylation via asparagine  integral component of endoplasmic reticulum membrane  ubiquitin-dependent ERAD pathway  ubiquitin-dependent ERAD pathway  ubiquitin-dependent ERAD pathway  endoplasmic reticulum unfolded protein response  retrograde protein transport, ER to cytosol  IRE1-mediated unfolded protein response  ERAD pathway  ERAD pathway  Derlin-1 retrotranslocation complex  protein ubiquitination involved in ubiquitin-dependent protein catabolic process  protein ubiquitination involved in ubiquitin-dependent protein catabolic process  endoplasmic reticulum quality control compartment  protein stabilization  unfolded protein binding  chaperone binding  ATPase binding  ubiquitin protein ligase activity  ubiquitin protein ligase activity  ubiquitin protein ligase activity  protein K48-linked ubiquitination  negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  ubiquitin protein ligase activity involved in ERAD pathway  ubiquitin protein ligase activity involved in ERAD pathway  ubiquitin protein ligase activity involved in ERAD pathway  endoplasmic reticulum mannose trimming  ubiquitin-specific protease binding  
Ontology : EGO-EBIHrd1p ubiquitin ligase complex  Hrd1p ubiquitin ligase ERAD-L complex  protein binding  nucleoplasm  endoplasmic reticulum  endoplasmic reticulum  endoplasmic reticulum membrane  smooth endoplasmic reticulum  zinc ion binding  membrane  protein ubiquitination  protein ubiquitination  protein N-linked glycosylation via asparagine  integral component of endoplasmic reticulum membrane  ubiquitin-dependent ERAD pathway  ubiquitin-dependent ERAD pathway  ubiquitin-dependent ERAD pathway  endoplasmic reticulum unfolded protein response  retrograde protein transport, ER to cytosol  IRE1-mediated unfolded protein response  ERAD pathway  ERAD pathway  Derlin-1 retrotranslocation complex  protein ubiquitination involved in ubiquitin-dependent protein catabolic process  protein ubiquitination involved in ubiquitin-dependent protein catabolic process  endoplasmic reticulum quality control compartment  protein stabilization  unfolded protein binding  chaperone binding  ATPase binding  ubiquitin protein ligase activity  ubiquitin protein ligase activity  ubiquitin protein ligase activity  protein K48-linked ubiquitination  negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  ubiquitin protein ligase activity involved in ERAD pathway  ubiquitin protein ligase activity involved in ERAD pathway  ubiquitin protein ligase activity involved in ERAD pathway  endoplasmic reticulum mannose trimming  ubiquitin-specific protease binding  
Pathways : KEGGUbiquitin mediated proteolysis    Protein processing in endoplasmic reticulum   
NDEx NetworkSYVN1
Atlas of Cancer Signalling NetworkSYVN1
Wikipedia pathwaysSYVN1
Orthology - Evolution
OrthoDB84447
GeneTree (enSembl)ENSG00000162298
Phylogenetic Trees/Animal Genes : TreeFamSYVN1
HOVERGENQ86TM6
HOGENOMQ86TM6
Homologs : HomoloGeneSYVN1
Homology/Alignments : Family Browser (UCSC)SYVN1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYVN1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYVN1
dbVarSYVN1
ClinVarSYVN1
1000_GenomesSYVN1 
Exome Variant ServerSYVN1
ExAC (Exome Aggregation Consortium)SYVN1 (select the gene name)
Genetic variants : HAPMAP84447
Genomic Variants (DGV)SYVN1 [DGVbeta]
DECIPHERSYVN1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSYVN1 
Mutations
ICGC Data PortalSYVN1 
TCGA Data PortalSYVN1 
Broad Tumor PortalSYVN1
OASIS PortalSYVN1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYVN1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSYVN1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SYVN1
DgiDB (Drug Gene Interaction Database)SYVN1
DoCM (Curated mutations)SYVN1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYVN1 (select a term)
intoGenSYVN1
Cancer3DSYVN1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608046   
Orphanet
MedgenSYVN1
Genetic Testing Registry SYVN1
NextProtQ86TM6 [Medical]
TSGene84447
GENETestsSYVN1
Target ValidationSYVN1
Huge Navigator SYVN1 [HugePedia]
snp3D : Map Gene to Disease84447
BioCentury BCIQSYVN1
ClinGenSYVN1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD84447
Chemical/Pharm GKB GenePA128394735
Clinical trialSYVN1
Miscellaneous
canSAR (ICR)SYVN1 (select the gene name)
Probes
Litterature
PubMed102 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYVN1
EVEXSYVN1
GoPubMedSYVN1
iHOPSYVN1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:34:02 CEST 2017

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