Atlas of Genetics and Cytogenetics in Oncology and Haematology


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GGPS1 (geranylgeranyl diphosphate synthase 1)

Identity

Alias_symbol (synonym)GGPPS1
Other aliasGGPPS
HGNC (Hugo) GGPS1
LocusID (NCBI) 9453
Atlas_Id 63770
Location 1q42.3  [Link to chromosome band 1q42]
Location_base_pair Starts at 235328438 and ends at 235344529 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ARID4B (1q42.3) / GGPS1 (1q42.3)GGPS1 (1q42.3) / INO80B (2p13.1)GGPS1 (1q42.3) / PBRM1 (3p21.1)
GGPS1 (1q42.3) / SERPINA3 (14q32.13)RBM34 (1q42.3) / GGPS1 (1q42.3)

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

 


External links

Nomenclature
HGNC (Hugo)GGPS1   4249
Cards
Entrez_Gene (NCBI)GGPS1  9453  geranylgeranyl diphosphate synthase 1
AliasesGGPPS; GGPPS1
GeneCards (Weizmann)GGPS1
Ensembl hg19 (Hinxton)ENSG00000152904 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000152904 [Gene_View]  chr1:235328438-235344529 [Contig_View]  GGPS1 [Vega]
ICGC DataPortalENSG00000152904
TCGA cBioPortalGGPS1
AceView (NCBI)GGPS1
Genatlas (Paris)GGPS1
WikiGenes9453
SOURCE (Princeton)GGPS1
Genetics Home Reference (NIH)GGPS1
Genomic and cartography
GoldenPath hg38 (UCSC)GGPS1  -     chr1:235328438-235344529 +  1q42.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)GGPS1  -     1q42.3   [Description]    (hg19-Feb_2009)
EnsemblGGPS1 - 1q42.3 [CytoView hg19]  GGPS1 - 1q42.3 [CytoView hg38]
Mapping of homologs : NCBIGGPS1 [Mapview hg19]  GGPS1 [Mapview hg38]
OMIM606982   
Gene and transcription
Genbank (Entrez)AB016043 AB017971 AB019036 AF057698 AF125394
RefSeq transcript (Entrez)NM_001037277 NM_001037278 NM_004837
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)GGPS1
Cluster EST : UnigeneHs.730768 [ NCBI ]
CGAP (NCI)Hs.730768
Alternative Splicing GalleryENSG00000152904
Gene ExpressionGGPS1 [ NCBI-GEO ]   GGPS1 [ EBI - ARRAY_EXPRESS ]   GGPS1 [ SEEK ]   GGPS1 [ MEM ]
Gene Expression Viewer (FireBrowse)GGPS1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9453
GTEX Portal (Tissue expression)GGPS1
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95749   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95749  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95749
Splice isoforms : SwissVarO95749
Catalytic activity : Enzyme2.5.1.- [ Enzyme-Expasy ]   2.5.1.-2.5.1.- [ IntEnz-EBI ]   2.5.1.- [ BRENDA ]   2.5.1.- [ KEGG ]   
PhosPhoSitePlusO95749
Domaine pattern : Prosite (Expaxy)POLYPRENYL_SYNTHASE_1 (PS00723)    POLYPRENYL_SYNTHASE_2 (PS00444)   
Domains : Interpro (EBI)Isoprenoid_synthase_dom    Polyprenyl_synt    Polyprenyl_synt_CS   
Domain families : Pfam (Sanger)polyprenyl_synt (PF00348)   
Domain families : Pfam (NCBI)pfam00348   
Conserved Domain (NCBI)GGPS1
DMDM Disease mutations9453
Blocks (Seattle)GGPS1
PDB (SRS)2Q80   
PDB (PDBSum)2Q80   
PDB (IMB)2Q80   
PDB (RSDB)2Q80   
Structural Biology KnowledgeBase2Q80   
SCOP (Structural Classification of Proteins)2Q80   
CATH (Classification of proteins structures)2Q80   
SuperfamilyO95749
Human Protein AtlasENSG00000152904
Peptide AtlasO95749
HPRD06099
IPIIPI00032892   IPI00658186   IPI00945938   IPI00946064   
Protein Interaction databases
DIP (DOE-UCLA)O95749
IntAct (EBI)O95749
FunCoupENSG00000152904
BioGRIDGGPS1
STRING (EMBL)GGPS1
ZODIACGGPS1
Ontologies - Pathways
QuickGOO95749
Ontology : AmiGOdimethylallyltranstransferase activity  farnesyltranstransferase activity  geranyltranstransferase activity  protein binding  cytosol  cholesterol biosynthetic process  isoprenoid metabolic process  geranyl diphosphate biosynthetic process  geranylgeranyl diphosphate biosynthetic process  identical protein binding  farnesyl diphosphate biosynthetic process  metal ion binding  
Ontology : EGO-EBIdimethylallyltranstransferase activity  farnesyltranstransferase activity  geranyltranstransferase activity  protein binding  cytosol  cholesterol biosynthetic process  isoprenoid metabolic process  geranyl diphosphate biosynthetic process  geranylgeranyl diphosphate biosynthetic process  identical protein binding  farnesyl diphosphate biosynthetic process  metal ion binding  
Pathways : KEGGTerpenoid backbone biosynthesis   
NDEx NetworkGGPS1
Atlas of Cancer Signalling NetworkGGPS1
Wikipedia pathwaysGGPS1
Orthology - Evolution
OrthoDB9453
GeneTree (enSembl)ENSG00000152904
Phylogenetic Trees/Animal Genes : TreeFamGGPS1
HOVERGENO95749
HOGENOMO95749
Homologs : HomoloGeneGGPS1
Homology/Alignments : Family Browser (UCSC)GGPS1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerGGPS1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)GGPS1
dbVarGGPS1
ClinVarGGPS1
1000_GenomesGGPS1 
Exome Variant ServerGGPS1
ExAC (Exome Aggregation Consortium)GGPS1 (select the gene name)
Genetic variants : HAPMAP9453
Genomic Variants (DGV)GGPS1 [DGVbeta]
DECIPHERGGPS1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisGGPS1 
Mutations
ICGC Data PortalGGPS1 
TCGA Data PortalGGPS1 
Broad Tumor PortalGGPS1
OASIS PortalGGPS1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICGGPS1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDGGPS1
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 GGPS1
DgiDB (Drug Gene Interaction Database)GGPS1
DoCM (Curated mutations)GGPS1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)GGPS1 (select a term)
intoGenGGPS1
Cancer3DGGPS1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606982   
Orphanet
MedgenGGPS1
Genetic Testing Registry GGPS1
NextProtO95749 [Medical]
TSGene9453
GENETestsGGPS1
Target ValidationGGPS1
Huge Navigator GGPS1 [HugePedia]
snp3D : Map Gene to Disease9453
BioCentury BCIQGGPS1
ClinGenGGPS1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9453
Chemical/Pharm GKB GenePA28661
Clinical trialGGPS1
Miscellaneous
canSAR (ICR)GGPS1 (select the gene name)
Probes
Litterature
PubMed24 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineGGPS1
EVEXGGPS1
GoPubMedGGPS1
iHOPGGPS1
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 18 13:09:21 CEST 2017

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