Atlas of Genetics and Cytogenetics in Oncology and Haematology


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IGSF3 (immunoglobulin superfamily member 3)

Identity

Alias_namesimmunoglobulin superfamily
Alias_symbol (synonym)V8
EWI-3
MGC117164
Other aliasLCDD
HGNC (Hugo) IGSF3
LocusID (NCBI) 3321
Atlas_Id 54375
Location 1p13.1  [Link to chromosome band 1p13]
Location_base_pair Starts at 116574398 and ends at 116666956 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)
IGSF3 (1p13.1) / GGT1 (22q11.23)IGSF3 (1p13.1) / KDM2A (11q13.2)IGSF3 (1p13.1) / MAN1A2 (1p12)
IGSF3 (1p13.1) / TBX15 (1p12)TTC28 (22q12.1) / IGSF3 (1p13.1)IGSF3 1p13.1 / KDM2A 11q13.2
IGSF3 1p13.1 / MAN1A2 1p12IGSF3 1p13.1 / TBX15 1p12

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 4 ]
  Lung: Translocations in Adenocarcinoma
t(1;1)(p12;p13) IGSF3/TBX15
t(1;11)(p13;q13) IGSF3/KDM2A
t(1;22)(p13;q11) IGSF3/GGT1


External links

Nomenclature
HGNC (Hugo)IGSF3   5950
Cards
Entrez_Gene (NCBI)IGSF3  3321  immunoglobulin superfamily member 3
AliasesEWI-3; LCDD; V8
GeneCards (Weizmann)IGSF3
Ensembl hg19 (Hinxton)ENSG00000143061 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143061 [Gene_View]  ENSG00000143061 [Sequence]  chr1:116574398-116666956 [Contig_View]  IGSF3 [Vega]
ICGC DataPortalENSG00000143061
TCGA cBioPortalIGSF3
AceView (NCBI)IGSF3
Genatlas (Paris)IGSF3
WikiGenes3321
SOURCE (Princeton)IGSF3
Genetics Home Reference (NIH)IGSF3
Genomic and cartography
GoldenPath hg38 (UCSC)IGSF3  -     chr1:116574398-116666956 -  1p13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)IGSF3  -     1p13.1   [Description]    (hg19-Feb_2009)
EnsemblIGSF3 - 1p13.1 [CytoView hg19]  IGSF3 - 1p13.1 [CytoView hg38]
Mapping of homologs : NCBIIGSF3 [Mapview hg19]  IGSF3 [Mapview hg38]
OMIM149700   603491   
Gene and transcription
Genbank (Entrez)AB007935 AF031174 AI968231 AK097809 BC110651
RefSeq transcript (Entrez)NM_001007237 NM_001542
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)IGSF3
Cluster EST : UnigeneHs.171057 [ NCBI ]
CGAP (NCI)Hs.171057
Alternative Splicing GalleryENSG00000143061
Gene ExpressionIGSF3 [ NCBI-GEO ]   IGSF3 [ EBI - ARRAY_EXPRESS ]   IGSF3 [ SEEK ]   IGSF3 [ MEM ]
Gene Expression Viewer (FireBrowse)IGSF3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3321
GTEX Portal (Tissue expression)IGSF3
Human Protein AtlasENSG00000143061-IGSF3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75054   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75054  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75054
Splice isoforms : SwissVarO75054
PhosPhoSitePlusO75054
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)Ig-like_dom    Ig-like_dom_sf    Ig-like_fold    Ig_sub    Ig_sub2    Ig_V-set   
Domain families : Pfam (Sanger)V-set (PF07686)   
Domain families : Pfam (NCBI)pfam07686   
Domain families : Smart (EMBL)IG (SM00409)  IGc2 (SM00408)  IGv (SM00406)  
Conserved Domain (NCBI)IGSF3
DMDM Disease mutations3321
Blocks (Seattle)IGSF3
SuperfamilyO75054
Human Protein Atlas [tissue]ENSG00000143061-IGSF3 [tissue]
Peptide AtlasO75054
HPRD04602
IPIIPI00885103   IPI00042916   IPI00016890   
Protein Interaction databases
DIP (DOE-UCLA)O75054
IntAct (EBI)O75054
FunCoupENSG00000143061
BioGRIDIGSF3
STRING (EMBL)IGSF3
ZODIACIGSF3
Ontologies - Pathways
QuickGOO75054
Ontology : AmiGOmolecular_function  cell surface  integral component of membrane  lacrimal gland development  
Ontology : EGO-EBImolecular_function  cell surface  integral component of membrane  lacrimal gland development  
NDEx NetworkIGSF3
Atlas of Cancer Signalling NetworkIGSF3
Wikipedia pathwaysIGSF3
Orthology - Evolution
OrthoDB3321
GeneTree (enSembl)ENSG00000143061
Phylogenetic Trees/Animal Genes : TreeFamIGSF3
HOVERGENO75054
HOGENOMO75054
Homologs : HomoloGeneIGSF3
Homology/Alignments : Family Browser (UCSC)IGSF3
Gene fusions - Rearrangements
Fusion : MitelmanIGSF3/GGT1 [1p13.1/22q11.23]  
Fusion : MitelmanIGSF3/KDM2A [1p13.1/11q13.2]  [t(1;11)(p13;q13)]  
Fusion : MitelmanIGSF3/MAN1A2 [1p13.1/1p12]  [t(1;1)(p12;p13)]  
Fusion : MitelmanIGSF3/TBX15 [1p13.1/1p12]  [t(1;1)(p12;p13)]  
Fusion PortalIGSF3 1p13.1 KDM2A 11q13.2 BRCA
Fusion PortalIGSF3 1p13.1 MAN1A2 1p12 BRCA
Fusion PortalIGSF3 1p13.1 TBX15 1p12 BRCA
Fusion : QuiverIGSF3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerIGSF3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)IGSF3
dbVarIGSF3
ClinVarIGSF3
1000_GenomesIGSF3 
Exome Variant ServerIGSF3
ExAC (Exome Aggregation Consortium)ENSG00000143061
GNOMAD BrowserENSG00000143061
Varsome BrowserIGSF3
Genetic variants : HAPMAP3321
Genomic Variants (DGV)IGSF3 [DGVbeta]
DECIPHERIGSF3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisIGSF3 
Mutations
ICGC Data PortalIGSF3 
TCGA Data PortalIGSF3 
Broad Tumor PortalIGSF3
OASIS PortalIGSF3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICIGSF3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDIGSF3
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 IGSF3
DgiDB (Drug Gene Interaction Database)IGSF3
DoCM (Curated mutations)IGSF3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)IGSF3 (select a term)
intoGenIGSF3
Cancer3DIGSF3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM149700    603491   
Orphanet23643   
DisGeNETIGSF3
MedgenIGSF3
Genetic Testing Registry IGSF3
NextProtO75054 [Medical]
TSGene3321
GENETestsIGSF3
Target ValidationIGSF3
Huge Navigator IGSF3 [HugePedia]
snp3D : Map Gene to Disease3321
BioCentury BCIQIGSF3
ClinGenIGSF3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3321
Chemical/Pharm GKB GenePA29763
Clinical trialIGSF3
Miscellaneous
canSAR (ICR)IGSF3 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineIGSF3
EVEXIGSF3
GoPubMedIGSF3
iHOPIGSF3
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 : Mon Aug 27 11:28:49 CEST 2018

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