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PGBD5 (piggyBac transposable element derived 5)

Identity

Other alias-
HGNC (Hugo) PGBD5
LocusID (NCBI) 79605
Atlas_Id 57053
Location 1q42.13  [Link to chromosome band 1q42]
Location_base_pair Starts at 230321646 and ends at 230425928 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)
ABCC10 (6p21.1) / PGBD5 (1q42.13)EGLN1 (1q42.2) / PGBD5 (1q42.13)PGBD5 (1q42.13) / HBS1L (6q23.3)

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  EGLN1/PGBD5 (1q42)


External links

Nomenclature
HGNC (Hugo)PGBD5   19405
Cards
Entrez_Gene (NCBI)PGBD5  79605  piggyBac transposable element derived 5
Aliases
GeneCards (Weizmann)PGBD5
Ensembl hg19 (Hinxton)ENSG00000177614 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000177614 [Gene_View]  ENSG00000177614 [Sequence]  chr1:230321646-230425928 [Contig_View]  PGBD5 [Vega]
ICGC DataPortalENSG00000177614
TCGA cBioPortalPGBD5
AceView (NCBI)PGBD5
Genatlas (Paris)PGBD5
WikiGenes79605
SOURCE (Princeton)PGBD5
Genetics Home Reference (NIH)PGBD5
Genomic and cartography
GoldenPath hg38 (UCSC)PGBD5  -     chr1:230321646-230425928 -  1q42.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PGBD5  -     1q42.13   [Description]    (hg19-Feb_2009)
EnsemblPGBD5 - 1q42.13 [CytoView hg19]  PGBD5 - 1q42.13 [CytoView hg38]
Mapping of homologs : NCBIPGBD5 [Mapview hg19]  PGBD5 [Mapview hg38]
OMIM616791   
Gene and transcription
Genbank (Entrez)AK021475 AK297321 AK315968 AL833243 BC013901
RefSeq transcript (Entrez)NM_001258311 NM_024554
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PGBD5
Cluster EST : UnigeneHs.520463 [ NCBI ]
CGAP (NCI)Hs.520463
Alternative Splicing GalleryENSG00000177614
Gene ExpressionPGBD5 [ NCBI-GEO ]   PGBD5 [ EBI - ARRAY_EXPRESS ]   PGBD5 [ SEEK ]   PGBD5 [ MEM ]
Gene Expression Viewer (FireBrowse)PGBD5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)79605
GTEX Portal (Tissue expression)PGBD5
Human Protein AtlasENSG00000177614-PGBD5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8N414   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8N414  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8N414
Splice isoforms : SwissVarQ8N414
Catalytic activity : Enzyme3.1.-.- [ Enzyme-Expasy ]   3.1.-.-3.1.-.- [ IntEnz-EBI ]   3.1.-.- [ BRENDA ]   3.1.-.- [ KEGG ]   
PhosPhoSitePlusQ8N414
Domains : Interpro (EBI)PGBD   
Domain families : Pfam (Sanger)DDE_Tnp_1_7 (PF13843)   
Domain families : Pfam (NCBI)pfam13843   
Conserved Domain (NCBI)PGBD5
DMDM Disease mutations79605
Blocks (Seattle)PGBD5
SuperfamilyQ8N414
Human Protein Atlas [tissue]ENSG00000177614-PGBD5 [tissue]
Peptide AtlasQ8N414
IPIIPI00296532   IPI00002237   IPI00982931   
Protein Interaction databases
DIP (DOE-UCLA)Q8N414
IntAct (EBI)Q8N414
FunCoupENSG00000177614
BioGRIDPGBD5
STRING (EMBL)PGBD5
ZODIACPGBD5
Ontologies - Pathways
QuickGOQ8N414
Ontology : AmiGOendonuclease activity  nucleus  transposition  nucleic acid phosphodiester bond hydrolysis  
Ontology : EGO-EBIendonuclease activity  nucleus  transposition  nucleic acid phosphodiester bond hydrolysis  
NDEx NetworkPGBD5
Atlas of Cancer Signalling NetworkPGBD5
Wikipedia pathwaysPGBD5
Orthology - Evolution
OrthoDB79605
GeneTree (enSembl)ENSG00000177614
Phylogenetic Trees/Animal Genes : TreeFamPGBD5
HOVERGENQ8N414
HOGENOMQ8N414
Homologs : HomoloGenePGBD5
Homology/Alignments : Family Browser (UCSC)PGBD5
Gene fusions - Rearrangements
Fusion : QuiverPGBD5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPGBD5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PGBD5
dbVarPGBD5
ClinVarPGBD5
1000_GenomesPGBD5 
Exome Variant ServerPGBD5
ExAC (Exome Aggregation Consortium)ENSG00000177614
GNOMAD BrowserENSG00000177614
Varsome BrowserPGBD5
Genetic variants : HAPMAP79605
Genomic Variants (DGV)PGBD5 [DGVbeta]
DECIPHERPGBD5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPGBD5 
Mutations
ICGC Data PortalPGBD5 
TCGA Data PortalPGBD5 
Broad Tumor PortalPGBD5
OASIS PortalPGBD5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPGBD5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPGBD5
BioMutasearch PGBD5
DgiDB (Drug Gene Interaction Database)PGBD5
DoCM (Curated mutations)PGBD5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PGBD5 (select a term)
intoGenPGBD5
Cancer3DPGBD5(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616791   
Orphanet
DisGeNETPGBD5
MedgenPGBD5
Genetic Testing Registry PGBD5
NextProtQ8N414 [Medical]
TSGene79605
GENETestsPGBD5
Target ValidationPGBD5
Huge Navigator PGBD5 [HugePedia]
snp3D : Map Gene to Disease79605
BioCentury BCIQPGBD5
ClinGenPGBD5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD79605
Chemical/Pharm GKB GenePA134905621
Clinical trialPGBD5
Miscellaneous
canSAR (ICR)PGBD5 (select the gene name)
Probes
Litterature
PubMed8 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePGBD5
EVEXPGBD5
GoPubMedPGBD5
iHOPPGBD5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 6 11:29:35 CET 2018

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