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PDS5B (PDS5 cohesin associated factor B)

Identity

Alias_namesAPRIN
androgen-induced proliferation inhibitor
PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae)
Alias_symbol (synonym)AS3
KIAA0979
FLJ23236
CG008
Other alias
HGNC (Hugo) PDS5B
LocusID (NCBI) 23047
Atlas_Id 681
Location 13q13.1  [Link to chromosome band 13q13]
Location_base_pair Starts at 32586427 and ends at 32778020 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)
GTPBP10 (7q21.13) / PDS5B (13q13.1)NF1 (17q11.2) / PDS5B (13q13.1)PDS5B (13q13.1) / CBLB (3q13.11)
PDS5B (13q13.1) / CD3EAP (19q13.32)PDS5B (13q13.1) / CIDEC (3p25.3)PDS5B (13q13.1) / CRYBB1 (22q12.1)
PDS5B (13q13.1) / UBR2 (6p21.1)POLR3B (12q23.3) / PDS5B (13q13.1)PSMB7 (9q33.3) / PDS5B (13q13.1)
TUBGCP3 (13q34) / PDS5B (13q13.1)NF1 17q11.2 / PDS5B 13q13.1PDS5B 13q13.1 / CD3EAP 19q13.32
PDS5B 13q13.1 / CRYBB1 22q12.1PDS5B 13q13.1 / UBR2 6p21.1POLR3B 12q23.3 / PDS5B 13q13.1

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 6 ]
  inv(13)(q13q34) TUBGCP3/PDS5B
t(6;13)(p21;q13) PDS5B/UBR2
t(12;13)(q23;q13) POLR3B/PDS5B
t(13;17)(q13;q11) NF1/PDS5B
t(13;19)(q13;q13) PDS5B/CD3EAP
t(13;22)(q13;q12) PDS5B/CRYBB1

External links

Nomenclature
HGNC (Hugo)PDS5B   20418
Cards
Entrez_Gene (NCBI)PDS5B  23047  PDS5 cohesin associated factor B
AliasesAPRIN; AS3; CG008
GeneCards (Weizmann)PDS5B
Ensembl hg19 (Hinxton)ENSG00000083642 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000083642 [Gene_View]  ENSG00000083642 [Sequence]  chr13:32586427-32778020 [Contig_View]  PDS5B [Vega]
ICGC DataPortalENSG00000083642
TCGA cBioPortalPDS5B
AceView (NCBI)PDS5B
Genatlas (Paris)PDS5B
WikiGenes23047
SOURCE (Princeton)PDS5B
Genetics Home Reference (NIH)PDS5B
Genomic and cartography
GoldenPath hg38 (UCSC)PDS5B  -     chr13:32586427-32778020 +  13q13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PDS5B  -     13q13.1   [Description]    (hg19-Feb_2009)
GoldenPathPDS5B - 13q13.1 [CytoView hg19]  PDS5B - 13q13.1 [CytoView hg38]
ImmunoBaseENSG00000083642
Mapping of homologs : NCBIPDS5B [Mapview hg19]  PDS5B [Mapview hg38]
OMIM605333   
Gene and transcription
Genbank (Entrez)AB023196 AK026889 AK128502 AK299340 AL137201
RefSeq transcript (Entrez)NM_015032 NM_015928
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PDS5B
Cluster EST : UnigeneHs.744901 [ NCBI ]
CGAP (NCI)Hs.744901
Alternative Splicing GalleryENSG00000083642
Gene ExpressionPDS5B [ NCBI-GEO ]   PDS5B [ EBI - ARRAY_EXPRESS ]   PDS5B [ SEEK ]   PDS5B [ MEM ]
Gene Expression Viewer (FireBrowse)PDS5B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23047
GTEX Portal (Tissue expression)PDS5B
Human Protein AtlasENSG00000083642-PDS5B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NTI5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NTI5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NTI5
Splice isoforms : SwissVarQ9NTI5
PhosPhoSitePlusQ9NTI5
Domains : Interpro (EBI)ARM-type_fold   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)PDS5B
DMDM Disease mutations23047
Blocks (Seattle)PDS5B
PDB (RSDB)5HDT   
PDB Europe5HDT   
PDB (PDBSum)5HDT   
PDB (IMB)5HDT   
Structural Biology KnowledgeBase5HDT   
SCOP (Structural Classification of Proteins)5HDT   
CATH (Classification of proteins structures)5HDT   
SuperfamilyQ9NTI5
Human Protein Atlas [tissue]ENSG00000083642-PDS5B [tissue]
Peptide AtlasQ9NTI5
HPRD05624
IPIIPI00845446   IPI00845459   IPI00845253   IPI00845353   IPI00240812   IPI01014164   
Protein Interaction databases
DIP (DOE-UCLA)Q9NTI5
IntAct (EBI)Q9NTI5
FunCoupENSG00000083642
BioGRIDPDS5B
STRING (EMBL)PDS5B
ZODIACPDS5B
Ontologies - Pathways
QuickGOQ9NTI5
Ontology : AmiGOchromosome, centromeric region  chromatin  chromatin  lens development in camera-type eye  DNA binding  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  chromosome  cytosol  DNA repair  mitotic sister chromatid cohesion  mitotic sister chromatid cohesion  cell proliferation  negative regulation of cell proliferation  regulation of cell proliferation  cell division  neuroblast migration  
Ontology : EGO-EBIchromosome, centromeric region  chromatin  chromatin  lens development in camera-type eye  DNA binding  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  chromosome  cytosol  DNA repair  mitotic sister chromatid cohesion  mitotic sister chromatid cohesion  cell proliferation  negative regulation of cell proliferation  regulation of cell proliferation  cell division  neuroblast migration  
NDEx NetworkPDS5B
Atlas of Cancer Signalling NetworkPDS5B
Wikipedia pathwaysPDS5B
Orthology - Evolution
OrthoDB23047
GeneTree (enSembl)ENSG00000083642
Phylogenetic Trees/Animal Genes : TreeFamPDS5B
HOGENOMQ9NTI5
Homologs : HomoloGenePDS5B
Homology/Alignments : Family Browser (UCSC)PDS5B
Gene fusions - Rearrangements
Fusion : MitelmanNF1/PDS5B [17q11.2/13q13.1]  [t(13;17)(q13;q11)]  
Fusion : MitelmanPDS5B/CD3EAP [13q13.1/19q13.32]  [t(13;19)(q13;q13)]  
Fusion : MitelmanPDS5B/CRYBB1 [13q13.1/22q12.1]  [t(13;22)(q13;q12)]  
Fusion : MitelmanPDS5B/UBR2 [13q13.1/6p21.1]  [t(6;13)(p21;q13)]  
Fusion : MitelmanPOLR3B/PDS5B [12q23.3/13q13.1]  [t(12;13)(q23;q13)]  
Fusion : MitelmanTUBGCP3/PDS5B [13q34/13q13.1]  [inv(13)(q13q34)]  
Fusion PortalNF1 17q11.2 PDS5B 13q13.1 BRCA
Fusion PortalPDS5B 13q13.1 CD3EAP 19q13.32 LUAD
Fusion PortalPDS5B 13q13.1 CRYBB1 22q12.1 PRAD
Fusion PortalPDS5B 13q13.1 UBR2 6p21.1 BRCA
Fusion PortalPOLR3B 12q23.3 PDS5B 13q13.1 PRAD
Fusion : QuiverPDS5B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDS5B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDS5B
dbVarPDS5B
ClinVarPDS5B
1000_GenomesPDS5B 
Exome Variant ServerPDS5B
ExAC (Exome Aggregation Consortium)ENSG00000083642
GNOMAD BrowserENSG00000083642
Varsome BrowserPDS5B
Genetic variants : HAPMAP23047
Genomic Variants (DGV)PDS5B [DGVbeta]
DECIPHERPDS5B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPDS5B 
Mutations
ICGC Data PortalPDS5B 
TCGA Data PortalPDS5B 
Broad Tumor PortalPDS5B
OASIS PortalPDS5B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDS5B  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DPDS5B
Mutations and Diseases : HGMDPDS5B
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
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch PDS5B
DgiDB (Drug Gene Interaction Database)PDS5B
DoCM (Curated mutations)PDS5B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDS5B (select a term)
intoGenPDS5B
Cancer3DPDS5B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605333   
Orphanet
DisGeNETPDS5B
MedgenPDS5B
Genetic Testing Registry PDS5B
NextProtQ9NTI5 [Medical]
TSGene23047
GENETestsPDS5B
Target ValidationPDS5B
Huge Navigator PDS5B [HugePedia]
snp3D : Map Gene to Disease23047
BioCentury BCIQPDS5B
ClinGenPDS5B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23047
Chemical/Pharm GKB GenePA162399098
Clinical trialPDS5B
Miscellaneous
canSAR (ICR)PDS5B (select the gene name)
DataMed IndexPDS5B
Probes
Litterature
PubMed64 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDS5B
EVEXPDS5B
GoPubMedPDS5B
iHOPPDS5B
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 : Wed Nov 13 18:00:20 CET 2019
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