Atlas of Genetics and Cytogenetics in Oncology and Haematology

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PDCD11 (programmed cell death 11)

Identity

Alias_symbol (synonym)KIAA0185
ALG-4
RRP5
Other aliasALG4
NFBP
HGNC (Hugo) PDCD11
LocusID (NCBI) 22984
Atlas_Id 43400
Location 10q24.33  [Link to chromosome band 10q24]
Location_base_pair Starts at 103396655 and ends at 103446262 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)		ARHGAP21 (10p12.1) / PDCD11 (10q24.33)NEURL1 (10q24.33) / PDCD11 (10q24.33)OSER1 (20q13.12) / PDCD11 (10q24.33)
PDCD11 (10q24.33) / ANKFY1 (17p13.2)PDCD11 (10q24.33) / ATIC (2q35)PDCD11 (10q24.33) / FYCO1 (3p21.31)
PDCD11 (10q24.33) / TAF5 (10q24.33)ARHGAP21 10p12.1 / PDCD11 10q24.33NEURL PDCD11 10q24.33

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)PDCD11   13408
Cards
Entrez_Gene (NCBI)PDCD11  22984  programmed cell death 11
AliasesALG-4; ALG4; NFBP; RRP5
GeneCards (Weizmann)PDCD11
Ensembl hg19 (Hinxton)ENSG00000148843 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000148843 [Gene_View]  chr10:103396655-103446262 [Contig_View]  PDCD11 [Vega]
ICGC DataPortalENSG00000148843
TCGA cBioPortalPDCD11
AceView (NCBI)PDCD11
Genatlas (Paris)PDCD11
WikiGenes22984
SOURCE (Princeton)PDCD11
Genetics Home Reference (NIH)PDCD11
Genomic and cartography
GoldenPath hg38 (UCSC)PDCD11  -     chr10:103396655-103446262 +  10q24.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PDCD11  -     10q24.33   [Description]    (hg19-Feb_2009)
EnsemblPDCD11 - 10q24.33 [CytoView hg19]  PDCD11 - 10q24.33 [CytoView hg38]
Mapping of homologs : NCBIPDCD11 [Mapview hg19]  PDCD11 [Mapview hg38]
OMIM612333   
Gene and transcription
Genbank (Entrez)AK294971 AK307418 BC007698 BC023615 BC049838
RefSeq transcript (Entrez)NM_014976
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PDCD11
Cluster EST : UnigeneHs.239499 [ NCBI ]
CGAP (NCI)Hs.239499
Alternative Splicing GalleryENSG00000148843
Gene ExpressionPDCD11 [ NCBI-GEO ]   PDCD11 [ EBI - ARRAY_EXPRESS ]   PDCD11 [ SEEK ]   PDCD11 [ MEM ]
Gene Expression Viewer (FireBrowse)PDCD11 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22984
GTEX Portal (Tissue expression)PDCD11
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ14690   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ14690  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ14690
Splice isoforms : SwissVarQ14690
PhosPhoSitePlusQ14690
Domaine pattern : Prosite (Expaxy)S1 (PS50126)   
Domains : Interpro (EBI)HAT    NA-bd_OB-fold    S1_dom    S1_domain    Suf    TPR-contain_dom    TPR-like_helical_dom   
Domain families : Pfam (Sanger)S1 (PF00575)    Suf (PF05843)   
Domain families : Pfam (NCBI)pfam00575    pfam05843   
Domain families : Smart (EMBL)HAT (SM00386)  S1 (SM00316)  
Conserved Domain (NCBI)PDCD11
DMDM Disease mutations22984
Blocks (Seattle)PDCD11
PDB (SRS)1WI5   
PDB (PDBSum)1WI5   
PDB (IMB)1WI5   
PDB (RSDB)1WI5   
Structural Biology KnowledgeBase1WI5   
SCOP (Structural Classification of Proteins)1WI5   
CATH (Classification of proteins structures)1WI5   
SuperfamilyQ14690
Human Protein AtlasENSG00000148843
Peptide AtlasQ14690
HPRD18752
IPIIPI00400922   IPI01011284   
Protein Interaction databases
DIP (DOE-UCLA)Q14690
IntAct (EBI)Q14690
FunCoupENSG00000148843
BioGRIDPDCD11
STRING (EMBL)PDCD11
ZODIACPDCD11
Ontologies - Pathways
QuickGOQ14690
Ontology : AmiGORNA binding  RNA binding  protein binding  nucleus  nucleoplasm  nucleolus  cytosol  rRNA processing  mRNA processing  transcription factor binding  small-subunit processome  
Ontology : EGO-EBIRNA binding  RNA binding  protein binding  nucleus  nucleoplasm  nucleolus  cytosol  rRNA processing  mRNA processing  transcription factor binding  small-subunit processome  
NDEx NetworkPDCD11
Atlas of Cancer Signalling NetworkPDCD11
Wikipedia pathwaysPDCD11
Orthology - Evolution
OrthoDB22984
GeneTree (enSembl)ENSG00000148843
Phylogenetic Trees/Animal Genes : TreeFamPDCD11
HOVERGENQ14690
HOGENOMQ14690
Homologs : HomoloGenePDCD11
Homology/Alignments : Family Browser (UCSC)PDCD11
Gene fusions - Rearrangements
Fusion : MitelmanARHGAP21/PDCD11 [10p12.1/10q24.33]  [t(10;10)(p12;q24)]  
Fusion : MitelmanNEURL1/PDCD11 [10q24.33/10q24.33]  [t(10;10)(q24;q24)]  
Fusion: TCGAARHGAP21 10p12.1 PDCD11 10q24.33 PRAD
Fusion: TCGANEURL PDCD11 10q24.33 LUSC
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDCD11 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDCD11
dbVarPDCD11
ClinVarPDCD11
1000_GenomesPDCD11 
Exome Variant ServerPDCD11
ExAC (Exome Aggregation Consortium)PDCD11 (select the gene name)
Genetic variants : HAPMAP22984
Genomic Variants (DGV)PDCD11 [DGVbeta]
DECIPHERPDCD11 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPDCD11 
Mutations
ICGC Data PortalPDCD11 
TCGA Data PortalPDCD11 
Broad Tumor PortalPDCD11
OASIS PortalPDCD11 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDCD11  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDCD11
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 PDCD11
DgiDB (Drug Gene Interaction Database)PDCD11
DoCM (Curated mutations)PDCD11 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDCD11 (select a term)
intoGenPDCD11
Cancer3DPDCD11(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM612333   
Orphanet
MedgenPDCD11
Genetic Testing Registry PDCD11
NextProtQ14690 [Medical]
TSGene22984
GENETestsPDCD11
Target ValidationPDCD11
Huge Navigator PDCD11 [HugePedia]
snp3D : Map Gene to Disease22984
BioCentury BCIQPDCD11
ClinGenPDCD11
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22984
Chemical/Pharm GKB GenePA134909758
Clinical trialPDCD11
Miscellaneous
canSAR (ICR)PDCD11 (select the gene name)
Probes
Litterature
PubMed32 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDCD11
EVEXPDCD11
GoPubMedPDCD11
iHOPPDCD11
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:24:08 CEST 2017
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