Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SLX1B (SLX1 homolog B, structure-specific endonuclease subunit)

Identity

Alias_namesGIYD2
GIY-YIG domain containing 2
SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)
Alias_symbol (synonym)MGC5178
Other alias
HGNC (Hugo) SLX1B
LocusID (NCBI) 79008
Atlas_Id 41356
Location 16p11.2  [Link to chromosome band 16p11]
Location_base_pair Starts at 29454501 and ends at 29458224 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)SLX1B   28748
Cards
Entrez_Gene (NCBI)SLX1B  79008  SLX1 homolog B, structure-specific endonuclease subunit
AliasesGIYD2
GeneCards (Weizmann)SLX1B
Ensembl hg19 (Hinxton)ENSG00000181625 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000181625 [Gene_View]  ENSG00000181625 [Sequence]  chr16:29454501-29458224 [Contig_View]  SLX1B [Vega]
ICGC DataPortalENSG00000181625
TCGA cBioPortalSLX1B
AceView (NCBI)SLX1B
Genatlas (Paris)SLX1B
WikiGenes79008
SOURCE (Princeton)SLX1B
Genetics Home Reference (NIH)SLX1B
Genomic and cartography
GoldenPath hg38 (UCSC)SLX1B  -     chr16:29454501-29458224 +  16p11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLX1B  -     16p11.2   [Description]    (hg19-Feb_2009)
EnsemblSLX1B - 16p11.2 [CytoView hg19]  SLX1B - 16p11.2 [CytoView hg38]
Mapping of homologs : NCBISLX1B [Mapview hg19]  SLX1B [Mapview hg38]
OMIM615823   
Gene and transcription
Genbank (Entrez)AK027092 AK225436 BC000754 BC000803 BC015990
RefSeq transcript (Entrez)NM_024044 NM_178044
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLX1B
Cluster EST : UnigeneHs.728161 [ NCBI ]
CGAP (NCI)Hs.728161
Alternative Splicing GalleryENSG00000181625
Gene ExpressionSLX1B [ NCBI-GEO ]   SLX1B [ EBI - ARRAY_EXPRESS ]   SLX1B [ SEEK ]   SLX1B [ MEM ]
Gene Expression Viewer (FireBrowse)SLX1B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)79008
GTEX Portal (Tissue expression)SLX1B
Human Protein AtlasENSG00000181625-SLX1B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BQ83   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BQ83  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BQ83
Splice isoforms : SwissVarQ9BQ83
PhosPhoSitePlusQ9BQ83
Domaine pattern : Prosite (Expaxy)GIY_YIG (PS50164)   
Domains : Interpro (EBI)GIY-YIG_endonuc    GIY-YIG_endonuc_sf    Slx1    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)GIY-YIG (PF01541)   
Domain families : Pfam (NCBI)pfam01541   
Conserved Domain (NCBI)SLX1B
DMDM Disease mutations79008
Blocks (Seattle)SLX1B
SuperfamilyQ9BQ83
Human Protein Atlas [tissue]ENSG00000181625-SLX1B [tissue]
Peptide AtlasQ9BQ83
HPRD14673
Protein Interaction databases
DIP (DOE-UCLA)Q9BQ83
IntAct (EBI)Q9BQ83
FunCoupENSG00000181625
BioGRIDSLX1B
STRING (EMBL)SLX1B
ZODIACSLX1B
Ontologies - Pathways
QuickGOQ9BQ83
Ontology : AmiGOdouble-strand break repair via homologous recombination  endodeoxyribonuclease activity  protein binding  nucleoplasm  nucleoplasm  DNA repair  crossover junction endodeoxyribonuclease activity  DNA double-strand break processing involved in repair via single-strand annealing  telomere maintenance via telomere lengthening  5'-flap endonuclease activity  Slx1-Slx4 complex  Slx1-Slx4 complex  interstrand cross-link repair  metal ion binding  telomeric D-loop disassembly  nucleic acid phosphodiester bond hydrolysis  t-circle formation  t-circle formation  negative regulation of telomere maintenance via telomere lengthening  positive regulation of t-circle formation  
Ontology : EGO-EBIdouble-strand break repair via homologous recombination  endodeoxyribonuclease activity  protein binding  nucleoplasm  nucleoplasm  DNA repair  crossover junction endodeoxyribonuclease activity  DNA double-strand break processing involved in repair via single-strand annealing  telomere maintenance via telomere lengthening  5'-flap endonuclease activity  Slx1-Slx4 complex  Slx1-Slx4 complex  interstrand cross-link repair  metal ion binding  telomeric D-loop disassembly  nucleic acid phosphodiester bond hydrolysis  t-circle formation  t-circle formation  negative regulation of telomere maintenance via telomere lengthening  positive regulation of t-circle formation  
Pathways : KEGGFanconi anemia pathway   
NDEx NetworkSLX1B
Atlas of Cancer Signalling NetworkSLX1B
Wikipedia pathwaysSLX1B
Orthology - Evolution
OrthoDB79008
GeneTree (enSembl)ENSG00000181625
Phylogenetic Trees/Animal Genes : TreeFamSLX1B
HOGENOMQ9BQ83
Homologs : HomoloGeneSLX1B
Homology/Alignments : Family Browser (UCSC)SLX1B
Gene fusions - Rearrangements
Fusion : QuiverSLX1B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLX1B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLX1B
dbVarSLX1B
ClinVarSLX1B
1000_GenomesSLX1B 
Exome Variant ServerSLX1B
ExAC (Exome Aggregation Consortium)ENSG00000181625
GNOMAD BrowserENSG00000181625
Varsome BrowserSLX1B
Genetic variants : HAPMAP79008
Genomic Variants (DGV)SLX1B [DGVbeta]
DECIPHERSLX1B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLX1B 
Mutations
ICGC Data PortalSLX1B 
TCGA Data PortalSLX1B 
Broad Tumor PortalSLX1B
OASIS PortalSLX1B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLX1B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLX1B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SLX1B
DgiDB (Drug Gene Interaction Database)SLX1B
DoCM (Curated mutations)SLX1B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLX1B (select a term)
intoGenSLX1B
Cancer3DSLX1B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM615823   
Orphanet
DisGeNETSLX1B
MedgenSLX1B
Genetic Testing Registry SLX1B
NextProtQ9BQ83 [Medical]
TSGene79008
GENETestsSLX1B
Target ValidationSLX1B
Huge Navigator SLX1B [HugePedia]
snp3D : Map Gene to Disease79008
BioCentury BCIQSLX1B
ClinGenSLX1B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD79008
Chemical/Pharm GKB GenePA142671738
Clinical trialSLX1B
Miscellaneous
canSAR (ICR)SLX1B (select the gene name)
DataMed IndexSLX1B
Probes
Litterature
PubMed10 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLX1B
EVEXSLX1B
GoPubMedSLX1B
iHOPSLX1B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Feb 14 16:58:13 CET 2019
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