Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYNDIG1 (synapse differentiation inducing 1)

Identity

Alias (NCBI)C20orf39
DSPC2
IFITMD5
TMEM90B
HGNC (Hugo) SYNDIG1
HGNC Alias symbFLJ14220
IFITMD5
SynDIG1
HGNC Alias nameinterferon induced transmembrane protein domain containing 5
 synapse differentiation induced gene 1
HGNC Previous nameC20orf39
 TMEM90B
HGNC Previous namechromosome 20 open reading frame 39
 transmembrane protein 90B
LocusID (NCBI) 79953
Atlas_Id 74410
Location 20p11.21  [Link to chromosome band 20p11]
Location_base_pair Starts at 24469629 and ends at 24666616 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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    synapse differentiation inducing 1
AliasesC20orf39; DSPC2; IFITMD5; TMEM90B
GeneCards (Weizmann)SYNDIG1
Ensembl hg19 (Hinxton)ENSG00000101463 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000101463 [Gene_View]  ENSG00000101463 [Sequence]  chr20:24469629-24666616 [Contig_View]  SYNDIG1 [Vega]
ICGC DataPortalENSG00000101463
TCGA cBioPortalSYNDIG1
AceView (NCBI)SYNDIG1
Genatlas (Paris)SYNDIG1
SOURCE (Princeton)SYNDIG1
Genetics Home Reference (NIH)SYNDIG1
Genomic and cartography
GoldenPath hg38 (UCSC)SYNDIG1  -     chr20:24469629-24666616 +  20p11.21   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYNDIG1  -     20p11.21   [Description]    (hg19-Feb_2009)
GoldenPathSYNDIG1 - 20p11.21 [CytoView hg19]  SYNDIG1 - 20p11.21 [CytoView hg38]
ImmunoBaseENSG00000101463
Genome Data Viewer NCBISYNDIG1 [Mapview hg19]  
OMIM614311   
Gene and transcription
Genbank (Entrez)AK024282 BC030637 CR457325 DB306704
RefSeq transcript (Entrez)NM_001323606 NM_001323607 NM_024893
Consensus coding sequences : CCDS (NCBI)SYNDIG1
Gene ExpressionSYNDIG1 [ NCBI-GEO ]   SYNDIG1 [ EBI - ARRAY_EXPRESS ]   SYNDIG1 [ SEEK ]   SYNDIG1 [ MEM ]
Gene Expression Viewer (FireBrowse)SYNDIG1 [ Firebrowse - Broad ]
GenevisibleExpression of SYNDIG1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)79953
GTEX Portal (Tissue expression)SYNDIG1
Human Protein AtlasENSG00000101463-SYNDIG1 [pathology]   [cell]   [tissue]
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
PhosPhoSitePlusQ9H7V2
Domains : Interpro (EBI)CD225/Dispanin_fam   
Domain families : Pfam (Sanger)CD225 (PF04505)   
Domain families : Pfam (NCBI)pfam04505   
Conserved Domain (NCBI)SYNDIG1
SuperfamilyQ9H7V2
AlphaFold pdb e-kbQ9H7V2   
Human Protein Atlas [tissue]ENSG00000101463-SYNDIG1 [tissue]
HPRD12766
Protein Interaction databases
DIP (DOE-UCLA)Q9H7V2
IntAct (EBI)Q9H7V2
BioGRIDSYNDIG1
STRING (EMBL)SYNDIG1
ZODIACSYNDIG1
Ontologies - Pathways
QuickGOQ9H7V2
Ontology : AmiGOprotein binding  integral component of plasma membrane  intracellular protein transport  postsynaptic density  membrane  synaptic vesicle membrane  early endosome membrane  glutamate receptor binding  protein homodimerization activity  dendritic spine  dendritic shaft  intracellular membrane-bounded organelle  intracellular membrane-bounded organelle  cell body  positive regulation of synapse assembly  positive regulation of synapse assembly  excitatory synapse  excitatory synapse  synaptic vesicle clustering  synaptic vesicle clustering  postsynaptic density membrane  
Ontology : EGO-EBIprotein binding  integral component of plasma membrane  intracellular protein transport  postsynaptic density  membrane  synaptic vesicle membrane  early endosome membrane  glutamate receptor binding  protein homodimerization activity  dendritic spine  dendritic shaft  intracellular membrane-bounded organelle  intracellular membrane-bounded organelle  cell body  positive regulation of synapse assembly  positive regulation of synapse assembly  excitatory synapse  excitatory synapse  synaptic vesicle clustering  synaptic vesicle clustering  postsynaptic density membrane  
NDEx NetworkSYNDIG1
Atlas of Cancer Signalling NetworkSYNDIG1
Wikipedia pathwaysSYNDIG1
Orthology - Evolution
OrthoDB79953
GeneTree (enSembl)ENSG00000101463
Phylogenetic Trees/Animal Genes : TreeFamSYNDIG1
Homologs : HomoloGeneSYNDIG1
Homology/Alignments : Family Browser (UCSC)SYNDIG1
Gene fusions - Rearrangements
Fusion : QuiverSYNDIG1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYNDIG1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYNDIG1
dbVarSYNDIG1
ClinVarSYNDIG1
MonarchSYNDIG1
1000_GenomesSYNDIG1 
Exome Variant ServerSYNDIG1
GNOMAD BrowserENSG00000101463
Varsome BrowserSYNDIG1
ACMGSYNDIG1 variants
VarityQ9H7V2
Genomic Variants (DGV)SYNDIG1 [DGVbeta]
DECIPHERSYNDIG1 [patients]   [syndromes]   [variants]   [genes]  
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]  
Somatic Mutations in Cancer : COSMIC3DSYNDIG1
Mutations and Diseases : HGMDSYNDIG1
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaSYNDIG1
DgiDB (Drug Gene Interaction Database)SYNDIG1
DoCM (Curated mutations)SYNDIG1
CIViC (Clinical Interpretations of Variants in Cancer)SYNDIG1
Cancer3DSYNDIG1
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614311   
Orphanet
DisGeNETSYNDIG1
MedgenSYNDIG1
Genetic Testing Registry SYNDIG1
NextProtQ9H7V2 [Medical]
GENETestsSYNDIG1
Target ValidationSYNDIG1
Huge Navigator SYNDIG1 [HugePedia]
ClinGenSYNDIG1
Clinical trials, drugs, therapy
MyCancerGenomeSYNDIG1
Protein Interactions : CTDSYNDIG1
Pharm GKB GenePA25752
PharosQ9H7V2
Clinical trialSYNDIG1
Miscellaneous
canSAR (ICR)SYNDIG1
HarmonizomeSYNDIG1
DataMed IndexSYNDIG1
Probes
Litterature
PubMed14 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXSYNDIG1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 16:24:39 CEST 2021

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