Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SYNPO (synaptopodin)

Identity

Alias_symbol (synonym)KIAA1029
Other alias-
HGNC (Hugo) SYNPO
LocusID (NCBI) 11346
Atlas_Id 74421
Location 5q33.1  [Link to chromosome band 5q33]
Location_base_pair Starts at 150640645 and ends at 150652341 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)
FRMD4A (10p13) / SYNPO (5q33.1)SYNPO (5q33.1) / SYNPO (5q33.1)SYNPO (5q33.1) / TRIOBP (22q13.1)

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)SYNPO   30672
Cards
Entrez_Gene (NCBI)SYNPO  11346  synaptopodin
Aliases
GeneCards (Weizmann)SYNPO
Ensembl hg19 (Hinxton)ENSG00000171992 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000171992 [Gene_View]  chr5:150640645-150652341 [Contig_View]  SYNPO [Vega]
ICGC DataPortalENSG00000171992
TCGA cBioPortalSYNPO
AceView (NCBI)SYNPO
Genatlas (Paris)SYNPO
WikiGenes11346
SOURCE (Princeton)SYNPO
Genetics Home Reference (NIH)SYNPO
Genomic and cartography
GoldenPath hg38 (UCSC)SYNPO  -     chr5:150640645-150652341 +  5q33.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SYNPO  -     5q33.1   [Description]    (hg19-Feb_2009)
EnsemblSYNPO - 5q33.1 [CytoView hg19]  SYNPO - 5q33.1 [CytoView hg38]
Mapping of homologs : NCBISYNPO [Mapview hg19]  SYNPO [Mapview hg38]
OMIM608155   
Gene and transcription
Genbank (Entrez)AA303936 AB028952 AF499136 AF499137 AJ278122
RefSeq transcript (Entrez)NM_001109974 NM_001166208 NM_001166209 NM_007286
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SYNPO
Cluster EST : UnigeneHs.435228 [ NCBI ]
CGAP (NCI)Hs.435228
Alternative Splicing GalleryENSG00000171992
Gene ExpressionSYNPO [ NCBI-GEO ]   SYNPO [ EBI - ARRAY_EXPRESS ]   SYNPO [ SEEK ]   SYNPO [ MEM ]
Gene Expression Viewer (FireBrowse)SYNPO [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)11346
GTEX Portal (Tissue expression)SYNPO
Human Protein AtlasENSG00000171992-SYNPO [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8N3V7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8N3V7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8N3V7
Splice isoforms : SwissVarQ8N3V7
PhosPhoSitePlusQ8N3V7
Domains : Interpro (EBI)Synpo   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)SYNPO
DMDM Disease mutations11346
Blocks (Seattle)SYNPO
SuperfamilyQ8N3V7
Human Protein Atlas [tissue]ENSG00000171992-SYNPO [tissue]
Peptide AtlasQ8N3V7
HPRD12179
IPIIPI00413058   IPI00027258   IPI00413060   IPI00982354   
Protein Interaction databases
DIP (DOE-UCLA)Q8N3V7
IntAct (EBI)Q8N3V7
FunCoupENSG00000171992
BioGRIDSYNPO
STRING (EMBL)SYNPO
ZODIACSYNPO
Ontologies - Pathways
QuickGOQ8N3V7
Ontology : AmiGOactin binding  actin binding  protein binding  nucleus  bicellular tight junction  visual learning  postsynaptic density  actin cytoskeleton  actin cytoskeleton  actin cytoskeleton  Z disc  positive regulation of actin filament bundle assembly  dendritic spine  perikaryon  postsynaptic membrane  regulation of long-term neuronal synaptic plasticity  spine apparatus  modification of dendritic spine  spine apparatus assembly  
Ontology : EGO-EBIactin binding  actin binding  protein binding  nucleus  bicellular tight junction  visual learning  postsynaptic density  actin cytoskeleton  actin cytoskeleton  actin cytoskeleton  Z disc  positive regulation of actin filament bundle assembly  dendritic spine  perikaryon  postsynaptic membrane  regulation of long-term neuronal synaptic plasticity  spine apparatus  modification of dendritic spine  spine apparatus assembly  
NDEx NetworkSYNPO
Atlas of Cancer Signalling NetworkSYNPO
Wikipedia pathwaysSYNPO
Orthology - Evolution
OrthoDB11346
GeneTree (enSembl)ENSG00000171992
Phylogenetic Trees/Animal Genes : TreeFamSYNPO
HOVERGENQ8N3V7
HOGENOMQ8N3V7
Homologs : HomoloGeneSYNPO
Homology/Alignments : Family Browser (UCSC)SYNPO
Gene fusions - Rearrangements
Tumor Fusion PortalSYNPO
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSYNPO [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SYNPO
dbVarSYNPO
ClinVarSYNPO
1000_GenomesSYNPO 
Exome Variant ServerSYNPO
ExAC (Exome Aggregation Consortium)ENSG00000171992
GNOMAD BrowserENSG00000171992
Genetic variants : HAPMAP11346
Genomic Variants (DGV)SYNPO [DGVbeta]
DECIPHERSYNPO [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSYNPO 
Mutations
ICGC Data PortalSYNPO 
TCGA Data PortalSYNPO 
Broad Tumor PortalSYNPO
OASIS PortalSYNPO [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSYNPO  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSYNPO
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SYNPO
DgiDB (Drug Gene Interaction Database)SYNPO
DoCM (Curated mutations)SYNPO (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SYNPO (select a term)
intoGenSYNPO
Cancer3DSYNPO(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608155   
Orphanet
DisGeNETSYNPO
MedgenSYNPO
Genetic Testing Registry SYNPO
NextProtQ8N3V7 [Medical]
TSGene11346
GENETestsSYNPO
Target ValidationSYNPO
Huge Navigator SYNPO [HugePedia]
snp3D : Map Gene to Disease11346
BioCentury BCIQSYNPO
ClinGenSYNPO
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD11346
Chemical/Pharm GKB GenePA134863299
Clinical trialSYNPO
Miscellaneous
canSAR (ICR)SYNPO (select the gene name)
Probes
Litterature
PubMed42 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSYNPO
EVEXSYNPO
GoPubMedSYNPO
iHOPSYNPO
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Nov 20 20:17:07 CET 2017

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