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PGBD1 (piggyBac transposable element derived 1)

Identity

Alias_symbol (synonym)HUCEP-4
dJ874C20.4
SCAND4
Other alias
HGNC (Hugo) PGBD1
LocusID (NCBI) 84547
Atlas_Id 71857
Location 6p22.1  [Link to chromosome band 6p22]
Location_base_pair Starts at 28281537 and ends at 28302549 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)PGBD1   19398
Cards
Entrez_Gene (NCBI)PGBD1  84547  piggyBac transposable element derived 1
AliasesHUCEP-4; SCAND4; dJ874C20.4
GeneCards (Weizmann)PGBD1
Ensembl hg19 (Hinxton)ENSG00000137338 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000137338 [Gene_View]  ENSG00000137338 [Sequence]  chr6:28281537-28302549 [Contig_View]  PGBD1 [Vega]
ICGC DataPortalENSG00000137338
TCGA cBioPortalPGBD1
AceView (NCBI)PGBD1
Genatlas (Paris)PGBD1
WikiGenes84547
SOURCE (Princeton)PGBD1
Genetics Home Reference (NIH)PGBD1
Genomic and cartography
GoldenPath hg38 (UCSC)PGBD1  -     chr6:28281537-28302549 +  6p22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PGBD1  -     6p22.1   [Description]    (hg19-Feb_2009)
EnsemblPGBD1 - 6p22.1 [CytoView hg19]  PGBD1 - 6p22.1 [CytoView hg38]
Mapping of homologs : NCBIPGBD1 [Mapview hg19]  PGBD1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK223446 AK291228 BC019876 BC032507 BC040117
RefSeq transcript (Entrez)NM_001184743 NM_032507
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PGBD1
Cluster EST : UnigeneHs.144527 [ NCBI ]
CGAP (NCI)Hs.144527
Alternative Splicing GalleryENSG00000137338
Gene ExpressionPGBD1 [ NCBI-GEO ]   PGBD1 [ EBI - ARRAY_EXPRESS ]   PGBD1 [ SEEK ]   PGBD1 [ MEM ]
Gene Expression Viewer (FireBrowse)PGBD1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84547
GTEX Portal (Tissue expression)PGBD1
Human Protein AtlasENSG00000137338-PGBD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96JS3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96JS3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96JS3
Splice isoforms : SwissVarQ96JS3
PhosPhoSitePlusQ96JS3
Domaine pattern : Prosite (Expaxy)SCAN_BOX (PS50804)   
Domains : Interpro (EBI)PGBD    Retrov_capsid_C    SCAN_dom    SRCR   
Domain families : Pfam (Sanger)DDE_Tnp_1_7 (PF13843)    SCAN (PF02023)   
Domain families : Pfam (NCBI)pfam13843    pfam02023   
Domain families : Smart (EMBL)SCAN (SM00431)  
Conserved Domain (NCBI)PGBD1
DMDM Disease mutations84547
Blocks (Seattle)PGBD1
SuperfamilyQ96JS3
Human Protein Atlas [tissue]ENSG00000137338-PGBD1 [tissue]
Peptide AtlasQ96JS3
HPRD11426
IPIIPI00064323   
Protein Interaction databases
DIP (DOE-UCLA)Q96JS3
IntAct (EBI)Q96JS3
FunCoupENSG00000137338
BioGRIDPGBD1
STRING (EMBL)PGBD1
ZODIACPGBD1
Ontologies - Pathways
QuickGOQ96JS3
Ontology : AmiGOtranscription factor activity, sequence-specific DNA binding  scavenger receptor activity  protein binding  regulation of transcription, DNA-templated  receptor-mediated endocytosis  membrane  identical protein binding  
Ontology : EGO-EBItranscription factor activity, sequence-specific DNA binding  scavenger receptor activity  protein binding  regulation of transcription, DNA-templated  receptor-mediated endocytosis  membrane  identical protein binding  
NDEx NetworkPGBD1
Atlas of Cancer Signalling NetworkPGBD1
Wikipedia pathwaysPGBD1
Orthology - Evolution
OrthoDB84547
GeneTree (enSembl)ENSG00000137338
Phylogenetic Trees/Animal Genes : TreeFamPGBD1
HOVERGENQ96JS3
HOGENOMQ96JS3
Homologs : HomoloGenePGBD1
Homology/Alignments : Family Browser (UCSC)PGBD1
Gene fusions - Rearrangements
Fusion : QuiverPGBD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPGBD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PGBD1
dbVarPGBD1
ClinVarPGBD1
1000_GenomesPGBD1 
Exome Variant ServerPGBD1
ExAC (Exome Aggregation Consortium)ENSG00000137338
GNOMAD BrowserENSG00000137338
Varsome BrowserPGBD1
Genetic variants : HAPMAP84547
Genomic Variants (DGV)PGBD1 [DGVbeta]
DECIPHERPGBD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPGBD1 
Mutations
ICGC Data PortalPGBD1 
TCGA Data PortalPGBD1 
Broad Tumor PortalPGBD1
OASIS PortalPGBD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPGBD1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPGBD1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PGBD1
DgiDB (Drug Gene Interaction Database)PGBD1
DoCM (Curated mutations)PGBD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PGBD1 (select a term)
intoGenPGBD1
Cancer3DPGBD1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETPGBD1
MedgenPGBD1
Genetic Testing Registry PGBD1
NextProtQ96JS3 [Medical]
TSGene84547
GENETestsPGBD1
Target ValidationPGBD1
Huge Navigator PGBD1 [HugePedia]
snp3D : Map Gene to Disease84547
BioCentury BCIQPGBD1
ClinGenPGBD1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD84547
Chemical/Pharm GKB GenePA134919893
Clinical trialPGBD1
Miscellaneous
canSAR (ICR)PGBD1 (select the gene name)
Probes
Litterature
PubMed16 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePGBD1
EVEXPGBD1
GoPubMedPGBD1
iHOPPGBD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Jul 30 14:23:41 CEST 2018

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