SIPA1L3 (signal induced proliferation associated 1 like 3)

1. Identity

Alias_names
General Information
Alias_symbol (synonym)KIAA0545
Other aliasCTRCT45
SPAL3
SPAR3
HGNC (Hugo) SIPA1L3
LocusID (NCBI) 23094
Atlas_Id 54620
Location 19q13.13  [Link to chromosome band 19q13]
Location_base_pair Starts at 37907221 and ends at 38208372 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)
ATAD5 (17q11.2) / SIPA1L3 (19q13.13)CCDC97 (19q13.2) / SIPA1L3 (19q13.13)LSM14A (19q13.11) / SIPA1L3 (19q13.13)
MST1R (3p21.31) / SIPA1L3 (19q13.13)SAMD4B (19q13.2) / SIPA1L3 (19q13.13)SIPA1L3 (19q13.13) / CD22 (19q13.12)
SIPA1L3 (19q13.13) / ETHE1 (19q13.31)SIPA1L3 (19q13.13) / LPAR3 (1p22.3)SIPA1L3 (19q13.13) / LSM14A (19q13.11)
SIPA1L3 (19q13.13) / SIPA1L3 (19q13.13)SIPA1L3 (19q13.13) / WDR62 (19q13.12)SIPA1L3 (19q13.13) / ZNF835 (19q13.43)
SPTBN4 (19q13.2) / SIPA1L3 (19q13.13)SUPT5H (19q13.2) / SIPA1L3 (19q13.13)ATAD5 17q11.2 / SIPA1L3 19q13.13
CCDC97 19q13.2 / SIPA1L3 19q13.13SAMD4B 19q13.2 / SIPA1L3 19q13.13SIPA1L3 19q13.13 / ETHE1 19q13.31
SIPA1L3 19q13.13 / LSM14A 19q13.11SIPA1L3 19q13.13 / WDR62 19q13.12SIPA1L3 19q13.13 / ZNF835 19q13.43
SPTBN4 19q13.2 / SIPA1L3 19q13.13SUPT5H 19q13.2 / SIPA1L3 19q13.13

2. DNA/RNA

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 13 ]
  Lung: Translocations in Adenocarcinoma
Lung: Translocations in Squamous Cell Carcinoma
t(17;19)(q11;q13) ATAD5/SIPA1L3
CCDC97/SIPA1L3 (19q13)
SAMD4B/SIPA1L3 (19q13)
SIPA1L3/ETHE1 (19q13)
SIPA1L3/LSM14A (19q13)
SIPA1L3/SYMPK (19q13)
SIPA1L3/WDR62 (19q13)
SIPA1L3/ZNF835 (19q13)
SPTBN4/SIPA1L3 (19q13)
SUPT5H/SIPA1L3 (19q13)
SIPA1L3/CD22 (19q13)


3. External links

Nomenclature
HGNC (Hugo)SIPA1L3   23801
Cards
Entrez_Gene (NCBI)SIPA1L3  23094  signal induced proliferation associated 1 like 3
AliasesCTRCT45; SPAL3; SPAR3
GeneCards (Weizmann)SIPA1L3
Ensembl hg19 (Hinxton)ENSG00000105738 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000105738 [Gene_View] &nbspENSG00000105738 [Sequence]  chr19:37907221-38208372 [Contig_View]  SIPA1L3 [Vega]
ICGC DataPortalENSG00000105738
TCGA cBioPortalSIPA1L3
AceView (NCBI)SIPA1L3
Genatlas (Paris)SIPA1L3
WikiGenes23094
SOURCE (Princeton)SIPA1L3
Genetics Home Reference (NIH)SIPA1L3
Genomic and cartography
GoldenPath hg38 (UCSC)SIPA1L3  -     chr19:37907221-38208372 +  19q13.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SIPA1L3  -     19q13.13   [Description]    (hg19-Feb_2009)
EnsemblSIPA1L3 - 19q13.13 [CytoView hg19]  SIPA1L3 - 19q13.13 [CytoView hg38]
Mapping of homologs : NCBISIPA1L3 [Mapview hg19]  SIPA1L3 [Mapview hg38]
OMIM616655   616851   
Gene and transcription
Genbank (Entrez)AB011117 AI560928 AY168880 BC036863 BC150620
RefSeq transcript (Entrez)NM_015073
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SIPA1L3
Cluster EST : UnigeneHs.655502 [ NCBI ]
CGAP (NCI)Hs.655502
Alternative Splicing GalleryENSG00000105738
Gene ExpressionSIPA1L3 [ NCBI-GEO ]   SIPA1L3 [ EBI - ARRAY_EXPRESS ]   SIPA1L3 [ SEEK ]   SIPA1L3 [ MEM ]
Gene Expression Viewer (FireBrowse)SIPA1L3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets] &nbsp [Normal Tissue Atlas] &nbsp[carcinoma Classsification] &nbsp[NCI60]
GenevestigatorExpression in : [tissues] &nbsp[cell-lines] &nbsp[cancer] &nbsp[perturbations] &nbsp
BioGPS (Tissue expression)23094
GTEX Portal (Tissue expression)SIPA1L3
Human Protein AtlasENSG00000105738-SIPA1L3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO60292   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO60292  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO60292
Splice isoforms : SwissVarO60292
PhosPhoSitePlusO60292
Domaine pattern : Prosite (Expaxy)PDZ (PS50106)    RAPGAP (PS50085)   
Domains : Interpro (EBI)PDZ    PDZ_sf    Rap/Ran-GAP_sf    Rap_GAP_dom    SIPA1L3    SIPA1L_C   
Domain families : Pfam (Sanger)Rap_GAP (PF02145)    SPAR_C (PF11881)   
Domain families : Pfam (NCBI)pfam02145    pfam11881   
Domain families : Smart (EMBL)PDZ (SM00228)  
Conserved Domain (NCBI)SIPA1L3
DMDM Disease mutations23094
Blocks (Seattle)SIPA1L3
SuperfamilyO60292
Human Protein Atlas [tissue]ENSG00000105738-SIPA1L3 [tissue]
Peptide AtlasO60292
HPRD18755
IPIIPI00297254   
Protein Interaction databases
DIP (DOE-UCLA)O60292
IntAct (EBI)O60292
FunCoupENSG00000105738
BioGRIDSIPA1L3
STRING (EMBL)SIPA1L3
ZODIACSIPA1L3
Ontologies - Pathways
QuickGOO60292
Ontology : AmiGOeye development  stress fiber  hematopoietic progenitor cell differentiation  epithelial cell morphogenesis  GTPase activator activity  extracellular space  cytoskeleton organization  apical plasma membrane  positive regulation of GTPase activity  apical part of cell  regulation of small GTPase mediated signal transduction  tricellular tight junction  establishment of epithelial cell polarity  
Ontology : EGO-EBIeye development  stress fiber  hematopoietic progenitor cell differentiation  epithelial cell morphogenesis  GTPase activator activity  extracellular space  cytoskeleton organization  apical plasma membrane  positive regulation of GTPase activity  apical part of cell  regulation of small GTPase mediated signal transduction  tricellular tight junction  establishment of epithelial cell polarity  
Pathways : KEGGRap1 signaling pathway   
NDEx NetworkSIPA1L3
Atlas of Cancer Signalling NetworkSIPA1L3
Wikipedia pathwaysSIPA1L3
Orthology - Evolution
OrthoDB23094
GeneTree (enSembl)ENSG00000105738
Phylogenetic Trees/Animal Genes : TreeFamSIPA1L3
HOGENOMO60292
Homologs : HomoloGeneSIPA1L3
Homology/Alignments : Family Browser (UCSC)SIPA1L3
Gene fusions - Rearrangements
Fusion : MitelmanATAD5/SIPA1L3 [17q11.2/19q13.13] &nbsp[t(17;19)(q11;q13)]  
Fusion : MitelmanCCDC97/SIPA1L3 [19q13.2/19q13.13] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanLSM14A/SIPA1L3 [19q13.11/19q13.13] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSAMD4B/SIPA1L3 [19q13.2/19q13.13] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSIPA1L3/CD22 [19q13.13/19q13.12] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSIPA1L3/ETHE1 [19q13.13/19q13.31] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSIPA1L3/LSM14A [19q13.13/19q13.11] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSIPA1L3/WDR62 [19q13.13/19q13.12] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSIPA1L3/ZNF835 [19q13.13/19q13.43] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSPTBN4/SIPA1L3 [19q13.2/19q13.13] &nbsp[t(19;19)(q13;q13)]  
Fusion : MitelmanSUPT5H/SIPA1L3 [19q13.2/19q13.13] &nbsp[t(19;19)(q13;q13)]  
Fusion PortalATAD5 17q11.2 SIPA1L3 19q13.13 BLCA
Fusion PortalCCDC97 19q13.2 SIPA1L3 19q13.13 LUSC
Fusion PortalSAMD4B 19q13.2 SIPA1L3 19q13.13 BRCA
Fusion PortalSIPA1L3 19q13.13 ETHE1 19q13.31 BRCA
Fusion PortalSIPA1L3 19q13.13 LSM14A 19q13.11 BRCA
Fusion PortalSIPA1L3 19q13.13 WDR62 19q13.12 PRAD
Fusion PortalSIPA1L3 19q13.13 ZNF835 19q13.43 BRCA
Fusion PortalSPTBN4 19q13.2 SIPA1L3 19q13.13 PRAD
Fusion PortalSUPT5H 19q13.2 SIPA1L3 19q13.13 BRCA
Fusion : QuiverSIPA1L3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSIPA1L3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SIPA1L3
dbVarSIPA1L3
ClinVarSIPA1L3
1000_GenomesSIPA1L3 
Exome Variant ServerSIPA1L3
ExAC (Exome Aggregation Consortium)ENSG00000105738
GNOMAD BrowserENSG00000105738
Varsome BrowserSIPA1L3
Genetic variants : HAPMAP23094
Genomic Variants (DGV)SIPA1L3 [DGVbeta]
DECIPHERSIPA1L3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSIPA1L3 
Mutations
ICGC Data PortalSIPA1L3 
TCGA Data PortalSIPA1L3 
Broad Tumor PortalSIPA1L3
OASIS PortalSIPA1L3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSIPA1L3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSIPA1L3
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 SIPA1L3
DgiDB (Drug Gene Interaction Database)SIPA1L3
DoCM (Curated mutations)SIPA1L3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SIPA1L3 (select a term)
intoGenSIPA1L3
Cancer3DSIPA1L3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616655    616851   
Orphanet14011   
DisGeNETSIPA1L3
MedgenSIPA1L3
Genetic Testing Registry SIPA1L3
NextProtO60292 [Medical]
TSGene23094
GENETestsSIPA1L3
Target ValidationSIPA1L3
Huge Navigator SIPA1L3 [HugePedia]
snp3D : Map Gene to Disease23094
BioCentury BCIQSIPA1L3
ClinGenSIPA1L3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23094
Chemical/Pharm GKB GenePA134866783
Clinical trialSIPA1L3
Miscellaneous
canSAR (ICR)SIPA1L3 (select the gene name)
DataMed IndexSIPA1L3
Probes
Litterature
PubMed29 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSIPA1L3
EVEXSIPA1L3
GoPubMedSIPA1L3
iHOPSIPA1L3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Jan 17 18:38:04 CET 2019

For comments and suggestions or contributions, please contact us atlasgeneticsoncology@usal.es.