Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYNDIG1 (synapse differentiation inducing 1)

Identity

Alias_namesC20orf39
TMEM90B
chromosome 20 open reading frame 39
transmembrane protein 90B
Alias_symbol (synonym)FLJ14220
IFITMD5
SynDIG1
Other aliasDSPC2
HGNC (Hugo) SYNDIG1
LocusID (NCBI) 79953
Atlas_Id 74410
Location 20p11.21  [Link to chromosome band 20p11]
Location_base_pair Starts at 24449835 and ends at 24647253 bp from pter ( according to hg19-Feb_2009)

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)SYNDIG1   15885
Cards
Entrez_Gene (NCBI)SYNDIG1  79953  synapse differentiation inducing 1
AliasesC20orf39; DSPC2; IFITMD5; TMEM90B
GeneCards (Weizmann)SYNDIG1
Ensembl hg19 (Hinxton)ENSG00000101463 [Gene_View]  chr20:24449835-24647253 [Contig_View]  SYNDIG1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000101463 [Gene_View]  chr20:24449835-24647253 [Contig_View]  SYNDIG1 [Vega]
ICGC DataPortalENSG00000101463
TCGA cBioPortalSYNDIG1
AceView (NCBI)SYNDIG1
Genatlas (Paris)SYNDIG1
WikiGenes79953
SOURCE (Princeton)SYNDIG1
Genetics Home Reference (NIH)SYNDIG1
Genomic and cartography
GoldenPath hg19 (UCSC)SYNDIG1  -     chr20:24449835-24647253 +  20p11.21   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SYNDIG1  -     20p11.21   [Description]    (hg38-Dec_2013)
EnsemblSYNDIG1 - 20p11.21 [CytoView hg19]  SYNDIG1 - 20p11.21 [CytoView hg38]
Mapping of homologs : NCBISYNDIG1 [Mapview hg19]  SYNDIG1 [Mapview hg38]
OMIM614311   
Gene and transcription
Genbank (Entrez)AK024282 BC030637 CR457325 DB306704 HQ447408
RefSeq transcript (Entrez)NM_024893
RefSeq genomic (Entrez)NC_000020 NC_018931 NT_011387 NW_004929416
Consensus coding sequences : CCDS (NCBI)SYNDIG1
Cluster EST : UnigeneHs.124638 [ NCBI ]
CGAP (NCI)Hs.124638
Alternative Splicing GalleryENSG00000101463
Gene ExpressionSYNDIG1 [ NCBI-GEO ]   SYNDIG1 [ EBI - ARRAY_EXPRESS ]   SYNDIG1 [ SEEK ]   SYNDIG1 [ MEM ]
Gene Expression Viewer (FireBrowse)SYNDIG1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)79953
GTEX Portal (Tissue expression)SYNDIG1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H7V2   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H7V2  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H7V2
Splice isoforms : SwissVarQ9H7V2
PhosPhoSitePlusQ9H7V2
Domains : Interpro (EBI)CD225/Dispanin_fam   
Domain families : Pfam (Sanger)Dispanin (PF04505)   
Domain families : Pfam (NCBI)pfam04505   
Conserved Domain (NCBI)SYNDIG1
DMDM Disease mutations79953
Blocks (Seattle)SYNDIG1
SuperfamilyQ9H7V2
Human Protein AtlasENSG00000101463
Peptide AtlasQ9H7V2
HPRD12766
IPIIPI00016470   
Protein Interaction databases
DIP (DOE-UCLA)Q9H7V2
IntAct (EBI)Q9H7V2
FunCoupENSG00000101463
BioGRIDSYNDIG1
STRING (EMBL)SYNDIG1
ZODIACSYNDIG1
Ontologies - Pathways
QuickGOQ9H7V2
Ontology : AmiGOprotein binding  integral component of plasma membrane  intracellular protein transport  response to biotic stimulus  postsynaptic density  cell junction  early endosome membrane  glutamate receptor binding  protein homodimerization activity  dendritic spine  dendritic shaft  cell body  postsynaptic membrane  positive regulation of synapse assembly  excitatory synapse  synaptic vesicle clustering  
Ontology : EGO-EBIprotein binding  integral component of plasma membrane  intracellular protein transport  response to biotic stimulus  postsynaptic density  cell junction  early endosome membrane  glutamate receptor binding  protein homodimerization activity  dendritic spine  dendritic shaft  cell body  postsynaptic membrane  positive regulation of synapse assembly  excitatory synapse  synaptic vesicle clustering  
NDEx NetworkSYNDIG1
Atlas of Cancer Signalling NetworkSYNDIG1
Wikipedia pathwaysSYNDIG1
Orthology - Evolution
OrthoDB79953
GeneTree (enSembl)ENSG00000101463
Phylogenetic Trees/Animal Genes : TreeFamSYNDIG1
HOVERGENQ9H7V2
HOGENOMQ9H7V2
Homologs : HomoloGeneSYNDIG1
Homology/Alignments : Family Browser (UCSC)SYNDIG1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYNDIG1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYNDIG1
dbVarSYNDIG1
ClinVarSYNDIG1
1000_GenomesSYNDIG1 
Exome Variant ServerSYNDIG1
ExAC (Exome Aggregation Consortium)SYNDIG1 (select the gene name)
Genetic variants : HAPMAP79953
Genomic Variants (DGV)SYNDIG1 [DGVbeta]
DECIPHER (Syndromes)20:24449835-24647253  ENSG00000101463
CONAN: Copy Number AnalysisSYNDIG1 
Mutations
ICGC Data PortalSYNDIG1 
TCGA Data PortalSYNDIG1 
Broad Tumor PortalSYNDIG1
OASIS PortalSYNDIG1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYNDIG1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSYNDIG1
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 SYNDIG1
DgiDB (Drug Gene Interaction Database)SYNDIG1
DoCM (Curated mutations)SYNDIG1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYNDIG1 (select a term)
intoGenSYNDIG1
Cancer3DSYNDIG1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614311   
Orphanet
MedgenSYNDIG1
Genetic Testing Registry SYNDIG1
NextProtQ9H7V2 [Medical]
TSGene79953
GENETestsSYNDIG1
Huge Navigator SYNDIG1 [HugePedia]
snp3D : Map Gene to Disease79953
BioCentury BCIQSYNDIG1
ClinGenSYNDIG1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD79953
Chemical/Pharm GKB GenePA25752
Clinical trialSYNDIG1
Miscellaneous
canSAR (ICR)SYNDIG1 (select the gene name)
Probes
Litterature
PubMed11 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYNDIG1
EVEXSYNDIG1
GoPubMedSYNDIG1
iHOPSYNDIG1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 12:47:12 CET 2017

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