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SNED1 (sushi, nidogen and EGF like domains 1)

Identity

Alias_namessushi, nidogen and EGF-like domains 1
Alias_symbol (synonym)FLJ00133
SST3
Snep
Other alias
HGNC (Hugo) SNED1
LocusID (NCBI) 25992
Atlas_Id 73636
Location 2q37.3  [Link to chromosome band 2q37]
Location_base_pair Starts at 240998838 and ends at 241094228 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
FAM96A (15q22.31) / SNED1 (2q37.3)KCTD18 (2q33.1) / SNED1 (2q37.3)SNED1 (2q37.3) / DNAH7 (2q32.3)
SNED1 (2q37.3) / FARP2 (2q37.3)SNED1 (2q37.3) / HJURP (2q37.1)SNED1 (2q37.3) / MLPH (2q37.3)
SNED1 (2q37.3) / SNED1 (2q37.3)SNED1 (2q37.3) / STX12 (1p35.3)

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)SNED1   24696
Cards
Entrez_Gene (NCBI)SNED1  25992  sushi, nidogen and EGF like domains 1
AliasesSST3; Snep
GeneCards (Weizmann)SNED1
Ensembl hg19 (Hinxton)ENSG00000162804 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000162804 [Gene_View]  chr2:240998838-241094228 [Contig_View]  SNED1 [Vega]
ICGC DataPortalENSG00000162804
TCGA cBioPortalSNED1
AceView (NCBI)SNED1
Genatlas (Paris)SNED1
WikiGenes25992
SOURCE (Princeton)SNED1
Genetics Home Reference (NIH)SNED1
Genomic and cartography
GoldenPath hg38 (UCSC)SNED1  -     chr2:240998838-241094228 +  2q37.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNED1  -     2q37.3   [Description]    (hg19-Feb_2009)
EnsemblSNED1 - 2q37.3 [CytoView hg19]  SNED1 - 2q37.3 [CytoView hg38]
Mapping of homologs : NCBISNED1 [Mapview hg19]  SNED1 [Mapview hg38]
OMIM616634   
Gene and transcription
Genbank (Entrez)AF439717 AF439718 AK074062 AK074075 AL050143
RefSeq transcript (Entrez)NM_001080437
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNED1
Cluster EST : UnigeneHs.471834 [ NCBI ]
CGAP (NCI)Hs.471834
Alternative Splicing GalleryENSG00000162804
Gene ExpressionSNED1 [ NCBI-GEO ]   SNED1 [ EBI - ARRAY_EXPRESS ]   SNED1 [ SEEK ]   SNED1 [ MEM ]
Gene Expression Viewer (FireBrowse)SNED1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)25992
GTEX Portal (Tissue expression)SNED1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8TER0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8TER0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8TER0
Splice isoforms : SwissVarQ8TER0
PhosPhoSitePlusQ8TER0
Domaine pattern : Prosite (Expaxy)ASX_HYDROXYL (PS00010)    EGF_1 (PS00022)    EGF_2 (PS01186)    EGF_3 (PS50026)    EGF_CA (PS01187)    FN3 (PS50853)    NIDO (PS51220)    SUSHI (PS50923)   
Domains : Interpro (EBI)EGF-like_Ca-bd_dom    EGF-like_CS    EGF-like_dom    EGF-type_Asp/Asn_hydroxyl_site    EGF_Ca-bd_CS    FN3_dom    Ig-like_fold    NIDO_dom    Sushi_SCR_CCP_dom   
Domain families : Pfam (Sanger)EGF (PF00008)    fn3 (PF00041)    hEGF (PF12661)    NIDO (PF06119)   
Domain families : Pfam (NCBI)pfam00008    pfam00041    pfam12661    pfam06119   
Domain families : Smart (EMBL)CCP (SM00032)  EGF (SM00181)  EGF_CA (SM00179)  FN3 (SM00060)  NIDO (SM00539)  
Conserved Domain (NCBI)SNED1
DMDM Disease mutations25992
Blocks (Seattle)SNED1
SuperfamilyQ8TER0
Human Protein AtlasENSG00000162804
Peptide AtlasQ8TER0
IPIIPI00827714   IPI00856022   IPI00855880   IPI00152789   IPI00893731   IPI00893351   IPI00893484   
Protein Interaction databases
DIP (DOE-UCLA)Q8TER0
IntAct (EBI)Q8TER0
FunCoupENSG00000162804
BioGRIDSNED1
STRING (EMBL)SNED1
ZODIACSNED1
Ontologies - Pathways
QuickGOQ8TER0
Ontology : AmiGOcalcium ion binding  cell-matrix adhesion  extracellular exosome  
Ontology : EGO-EBIcalcium ion binding  cell-matrix adhesion  extracellular exosome  
NDEx NetworkSNED1
Atlas of Cancer Signalling NetworkSNED1
Wikipedia pathwaysSNED1
Orthology - Evolution
OrthoDB25992
GeneTree (enSembl)ENSG00000162804
Phylogenetic Trees/Animal Genes : TreeFamSNED1
HOVERGENQ8TER0
HOGENOMQ8TER0
Homologs : HomoloGeneSNED1
Homology/Alignments : Family Browser (UCSC)SNED1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNED1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNED1
dbVarSNED1
ClinVarSNED1
1000_GenomesSNED1 
Exome Variant ServerSNED1
ExAC (Exome Aggregation Consortium)SNED1 (select the gene name)
Genetic variants : HAPMAP25992
Genomic Variants (DGV)SNED1 [DGVbeta]
DECIPHERSNED1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNED1 
Mutations
ICGC Data PortalSNED1 
TCGA Data PortalSNED1 
Broad Tumor PortalSNED1
OASIS PortalSNED1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNED1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNED1
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 SNED1
DgiDB (Drug Gene Interaction Database)SNED1
DoCM (Curated mutations)SNED1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNED1 (select a term)
intoGenSNED1
Cancer3DSNED1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616634   
Orphanet
MedgenSNED1
Genetic Testing Registry SNED1
NextProtQ8TER0 [Medical]
TSGene25992
GENETestsSNED1
Target ValidationSNED1
Huge Navigator SNED1 [HugePedia]
snp3D : Map Gene to Disease25992
BioCentury BCIQSNED1
ClinGenSNED1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD25992
Chemical/Pharm GKB GenePA134946370
Clinical trialSNED1
Miscellaneous
canSAR (ICR)SNED1 (select the gene name)
Probes
Litterature
PubMed4 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNED1
EVEXSNED1
GoPubMedSNED1
iHOPSNED1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed May 31 15:41:59 CEST 2017

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