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SNW1 (SNW domain containing 1)

Identity

Alias_namesSKIIP
SKI interacting protein
Alias_symbol (synonym)NCoA-62
SKIP
Prp45
PRPF45
Bx42
Other aliasNCOA-62
HGNC (Hugo) SNW1
LocusID (NCBI) 22938
Atlas_Id 42348
Location 14q24.3  [Link to chromosome band 14q24]
Location_base_pair Starts at 77717601 and ends at 77761154 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
EIF4G1 (3q27.1) / SNW1 (14q24.3)IGF2 (11p15.5) / SNW1 (14q24.3)LARGE (22q12.3) / SNW1 (14q24.3)
MYO1C (17p13.3) / SNW1 (14q24.3)NDRG1 (8q24.22) / SNW1 (14q24.3)RPL8 (8q24.3) / SNW1 (14q24.3)
SNW1 (14q24.3) / SNW1 (14q24.3)EIF4G1 3q27.1 / SNW1 14q24.3IGF2 11p15.5 / SNW1 14q24.3
LARGE 22q12.3 / SNW1 14q24.3NDRG1 8q24.22 / SNW1 14q24.3RPL8 8q24.3 / SNW1 14q24.3

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)SNW1   16696
Cards
Entrez_Gene (NCBI)SNW1  22938  SNW domain containing 1
AliasesBx42; NCOA-62; PRPF45; Prp45; 
SKIIP; SKIP
GeneCards (Weizmann)SNW1
Ensembl hg19 (Hinxton)ENSG00000100603 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000100603 [Gene_View]  chr14:77717601-77761154 [Contig_View]  SNW1 [Vega]
ICGC DataPortalENSG00000100603
TCGA cBioPortalSNW1
AceView (NCBI)SNW1
Genatlas (Paris)SNW1
WikiGenes22938
SOURCE (Princeton)SNW1
Genetics Home Reference (NIH)SNW1
Genomic and cartography
GoldenPath hg38 (UCSC)SNW1  -     chr14:77717601-77761154 -  14q24.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNW1  -     14q24.3   [Description]    (hg19-Feb_2009)
EnsemblSNW1 - 14q24.3 [CytoView hg19]  SNW1 - 14q24.3 [CytoView hg38]
Mapping of homologs : NCBISNW1 [Mapview hg19]  SNW1 [Mapview hg38]
OMIM603055   
Gene and transcription
Genbank (Entrez)AF045184 AK292274 AK293619 AK302246 AK316087
RefSeq transcript (Entrez)NM_001318844 NM_012245
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNW1
Cluster EST : UnigeneHs.445498 [ NCBI ]
CGAP (NCI)Hs.445498
Alternative Splicing GalleryENSG00000100603
Gene ExpressionSNW1 [ NCBI-GEO ]   SNW1 [ EBI - ARRAY_EXPRESS ]   SNW1 [ SEEK ]   SNW1 [ MEM ]
Gene Expression Viewer (FireBrowse)SNW1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22938
GTEX Portal (Tissue expression)SNW1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13573   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ13573  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13573
Splice isoforms : SwissVarQ13573
PhosPhoSitePlusQ13573
Domains : Interpro (EBI)SKI-int_prot_SKIP    SKI-int_prot_SKIP_SNW-dom   
Domain families : Pfam (Sanger)SKIP_SNW (PF02731)   
Domain families : Pfam (NCBI)pfam02731   
Conserved Domain (NCBI)SNW1
DMDM Disease mutations22938
Blocks (Seattle)SNW1
SuperfamilyQ13573
Human Protein AtlasENSG00000100603
Peptide AtlasQ13573
HPRD04340
IPIIPI00013830   IPI00943237   IPI00910816   IPI01025618   IPI01025271   IPI01025390   
Protein Interaction databases
DIP (DOE-UCLA)Q13573
IntAct (EBI)Q13573
FunCoupENSG00000100603
BioGRIDSNW1
STRING (EMBL)SNW1
ZODIACSNW1
Ontologies - Pathways
QuickGOQ13573
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  generation of catalytic spliceosome for second transesterification step  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  transcription coactivator activity  transcription corepressor activity  RNA binding  Notch binding  protein binding  nucleus  nucleoplasm  nucleoplasm  spliceosomal complex  regulation of transcription from RNA polymerase II promoter  transcription initiation from RNA polymerase II promoter  Notch signaling pathway  cyclin/CDK positive transcription elongation factor complex  viral process  nuclear matrix  nuclear body  nuclear speck  enzyme binding  positive regulation of transforming growth factor beta receptor signaling pathway  nuclear hormone receptor binding  intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  vitamin D receptor binding  retinoic acid receptor binding  positive regulation by host of viral transcription  positive regulation by host of viral transcription  negative regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  SMAD binding  positive regulation of mRNA splicing, via spliceosome  retinoic acid receptor signaling pathway  regulation of retinoic acid receptor signaling pathway  androgen receptor binding  positive regulation of neurogenesis  positive regulation of histone H3-K4 methylation  regulation of vitamin D receptor signaling pathway  positive regulation of vitamin D receptor signaling pathway  catalytic step 2 spliceosome  post-mRNA release spliceosomal complex  SMAD3-SMAD4 protein complex  cellular response to retinoic acid  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  generation of catalytic spliceosome for second transesterification step  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  transcription coactivator activity  transcription corepressor activity  RNA binding  Notch binding  protein binding  nucleus  nucleoplasm  nucleoplasm  spliceosomal complex  regulation of transcription from RNA polymerase II promoter  transcription initiation from RNA polymerase II promoter  Notch signaling pathway  cyclin/CDK positive transcription elongation factor complex  viral process  nuclear matrix  nuclear body  nuclear speck  enzyme binding  positive regulation of transforming growth factor beta receptor signaling pathway  nuclear hormone receptor binding  intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  vitamin D receptor binding  retinoic acid receptor binding  positive regulation by host of viral transcription  positive regulation by host of viral transcription  negative regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  SMAD binding  positive regulation of mRNA splicing, via spliceosome  retinoic acid receptor signaling pathway  regulation of retinoic acid receptor signaling pathway  androgen receptor binding  positive regulation of neurogenesis  positive regulation of histone H3-K4 methylation  regulation of vitamin D receptor signaling pathway  positive regulation of vitamin D receptor signaling pathway  catalytic step 2 spliceosome  post-mRNA release spliceosomal complex  SMAD3-SMAD4 protein complex  cellular response to retinoic acid  
Pathways : KEGGSpliceosome    Notch signaling pathway    Epstein-Barr virus infection    Viral carcinogenesis   
NDEx NetworkSNW1
Atlas of Cancer Signalling NetworkSNW1
Wikipedia pathwaysSNW1
Orthology - Evolution
OrthoDB22938
GeneTree (enSembl)ENSG00000100603
Phylogenetic Trees/Animal Genes : TreeFamSNW1
HOVERGENQ13573
HOGENOMQ13573
Homologs : HomoloGeneSNW1
Homology/Alignments : Family Browser (UCSC)SNW1
Gene fusions - Rearrangements
Fusion : MitelmanEIF4G1/SNW1 [3q27.1/14q24.3]  [t(3;14)(q27;q24)]  
Fusion : MitelmanIGF2/SNW1 [11p15.5/14q24.3]  [t(11;14)(p15;q24)]  
Fusion : MitelmanLARGE/SNW1 [22q12.3/14q24.3]  [t(14;22)(q24;q12)]  
Fusion : MitelmanNDRG1/SNW1 [8q24.22/14q24.3]  [t(8;14)(q24;q24)]  
Fusion : MitelmanRPL8/SNW1 [8q24.3/14q24.3]  [t(8;14)(q24;q24)]  
Fusion: TCGAEIF4G1 3q27.1 SNW1 14q24.3 LUAD
Fusion: TCGAIGF2 11p15.5 SNW1 14q24.3 THCA
Fusion: TCGALARGE 22q12.3 SNW1 14q24.3 BRCA
Fusion: TCGANDRG1 8q24.22 SNW1 14q24.3 BLCA
Fusion: TCGARPL8 8q24.3 SNW1 14q24.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNW1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNW1
dbVarSNW1
ClinVarSNW1
1000_GenomesSNW1 
Exome Variant ServerSNW1
ExAC (Exome Aggregation Consortium)SNW1 (select the gene name)
Genetic variants : HAPMAP22938
Genomic Variants (DGV)SNW1 [DGVbeta]
DECIPHERSNW1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNW1 
Mutations
ICGC Data PortalSNW1 
TCGA Data PortalSNW1 
Broad Tumor PortalSNW1
OASIS PortalSNW1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNW1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNW1
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 SNW1
DgiDB (Drug Gene Interaction Database)SNW1
DoCM (Curated mutations)SNW1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNW1 (select a term)
intoGenSNW1
Cancer3DSNW1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603055   
Orphanet
MedgenSNW1
Genetic Testing Registry SNW1
NextProtQ13573 [Medical]
TSGene22938
GENETestsSNW1
Huge Navigator SNW1 [HugePedia]
snp3D : Map Gene to Disease22938
BioCentury BCIQSNW1
ClinGenSNW1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22938
Chemical/Pharm GKB GenePA134883977
Clinical trialSNW1
Miscellaneous
canSAR (ICR)SNW1 (select the gene name)
Probes
Litterature
PubMed95 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNW1
EVEXSNW1
GoPubMedSNW1
iHOPSNW1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri May 19 12:38:27 CEST 2017

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