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AGFG1 (ArfGAP with FG repeats 1)

Identity

Alias_namesHRB
HIV-1 Rev binding protein
Alias_symbol (synonym)RIP
RAB
Other alias
HGNC (Hugo) AGFG1
LocusID (NCBI) 3267
Atlas_Id 54942
Location 2q36.3  [Link to chromosome band 2q36]
Location_base_pair Starts at 228336888 and ends at 228425938 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
AGFG1 (2q36.3) / CCDC169 (13q13.3)AGFG1 (2q36.3) / MFF (2q36.3)AGFG1 (2q36.3) / NECTIN3 (3q13.13)
AGFG1 (2q36.3) / SERPINE1 (7q22.1)COX8A (11q13.1) / AGFG1 (2q36.3)DYNLL1 (12q24.31) / AGFG1 (2q36.3)
TRIP12 (2q36.3) / AGFG1 (2q36.3)AGFG1 2q36.3 / CCDC169 13q13.3AGFG1 2q36.3 / MFF 2q36.3
TRIP12 2q36.3 / AGFG1 2q36.3

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)AGFG1   5175
Cards
Entrez_Gene (NCBI)AGFG1  3267  ArfGAP with FG repeats 1
AliasesHRB; RAB; RIP
GeneCards (Weizmann)AGFG1
Ensembl hg19 (Hinxton)ENSG00000173744 [Gene_View]  chr2:228336888-228425938 [Contig_View]  AGFG1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000173744 [Gene_View]  chr2:228336888-228425938 [Contig_View]  AGFG1 [Vega]
ICGC DataPortalENSG00000173744
TCGA cBioPortalAGFG1
AceView (NCBI)AGFG1
Genatlas (Paris)AGFG1
WikiGenes3267
SOURCE (Princeton)AGFG1
Genetics Home Reference (NIH)AGFG1
Genomic and cartography
GoldenPath hg19 (UCSC)AGFG1  -     chr2:228336888-228425938 +  2q36.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)AGFG1  -     2q36.3   [Description]    (hg38-Dec_2013)
EnsemblAGFG1 - 2q36.3 [CytoView hg19]  AGFG1 - 2q36.3 [CytoView hg38]
Mapping of homologs : NCBIAGFG1 [Mapview hg19]  AGFG1 [Mapview hg38]
OMIM600862   
Gene and transcription
Genbank (Entrez)AA676544 AI742626 AI955214 AK097451 AK295030
RefSeq transcript (Entrez)NM_001135187 NM_001135188 NM_001135189 NM_004504
RefSeq genomic (Entrez)NC_000002 NC_018913 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)AGFG1
Cluster EST : UnigeneHs.352962 [ NCBI ]
CGAP (NCI)Hs.352962
Alternative Splicing GalleryENSG00000173744
Gene ExpressionAGFG1 [ NCBI-GEO ]   AGFG1 [ EBI - ARRAY_EXPRESS ]   AGFG1 [ SEEK ]   AGFG1 [ MEM ]
Gene Expression Viewer (FireBrowse)AGFG1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3267
GTEX Portal (Tissue expression)AGFG1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP52594   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP52594  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP52594
Splice isoforms : SwissVarP52594
PhosPhoSitePlusP52594
Domaine pattern : Prosite (Expaxy)ARFGAP (PS50115)   
Domains : Interpro (EBI)ArfGAP   
Domain families : Pfam (Sanger)ArfGap (PF01412)   
Domain families : Pfam (NCBI)pfam01412   
Domain families : Smart (EMBL)ArfGap (SM00105)  
Conserved Domain (NCBI)AGFG1
DMDM Disease mutations3267
Blocks (Seattle)AGFG1
PDB (SRS)2D9L    2OLM    2VX8   
PDB (PDBSum)2D9L    2OLM    2VX8   
PDB (IMB)2D9L    2OLM    2VX8   
PDB (RSDB)2D9L    2OLM    2VX8   
Structural Biology KnowledgeBase2D9L    2OLM    2VX8   
SCOP (Structural Classification of Proteins)2D9L    2OLM    2VX8   
CATH (Classification of proteins structures)2D9L    2OLM    2VX8   
SuperfamilyP52594
Human Protein AtlasENSG00000173744
Peptide AtlasP52594
HPRD02918
IPIIPI00607616   IPI00304693   IPI00736669   IPI01013774   IPI00903328   IPI00916083   IPI00915778   IPI00915906   
Protein Interaction databases
DIP (DOE-UCLA)P52594
IntAct (EBI)P52594
FunCoupENSG00000173744
BioGRIDAGFG1
STRING (EMBL)AGFG1
ZODIACAGFG1
Ontologies - Pathways
QuickGOP52594
Ontology : AmiGOacrosome assembly  DNA binding  RNA binding  GTPase activator activity  protein binding  nuclear pore  mRNA export from nucleus  multicellular organism development  spermatid nucleus differentiation  cytoplasmic, membrane-bounded vesicle  cell projection  neuronal cell body  intracellular membrane-bounded organelle  positive regulation of GTPase activity  intermediate filament organization  metal ion binding  
Ontology : EGO-EBIacrosome assembly  DNA binding  RNA binding  GTPase activator activity  protein binding  nuclear pore  mRNA export from nucleus  multicellular organism development  spermatid nucleus differentiation  cytoplasmic, membrane-bounded vesicle  cell projection  neuronal cell body  intracellular membrane-bounded organelle  positive regulation of GTPase activity  intermediate filament organization  metal ion binding  
Pathways : KEGGInfluenza A   
NDEx NetworkAGFG1
Atlas of Cancer Signalling NetworkAGFG1
Wikipedia pathwaysAGFG1
Orthology - Evolution
OrthoDB3267
GeneTree (enSembl)ENSG00000173744
Phylogenetic Trees/Animal Genes : TreeFamAGFG1
HOVERGENP52594
HOGENOMP52594
Homologs : HomoloGeneAGFG1
Homology/Alignments : Family Browser (UCSC)AGFG1
Gene fusions - Rearrangements
Fusion : MitelmanAGFG1/CCDC169 [2q36.3/13q13.3]  
Fusion : MitelmanAGFG1/MFF [2q36.3/2q36.3]  [t(2;2)(q36;q36)]  
Fusion : MitelmanTRIP12/AGFG1 [2q36.3/2q36.3]  [t(2;2)(q36;q36)]  
Fusion: TCGAAGFG1 2q36.3 CCDC169 13q13.3 PRAD
Fusion: TCGAAGFG1 2q36.3 MFF 2q36.3 LUAD
Fusion: TCGATRIP12 2q36.3 AGFG1 2q36.3 BRCA
Fusion Cancer (Beijing)DYNLL1 [12q24.31]  -  AGFG1 [2q36.3]  [FUSC004668]
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerAGFG1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)AGFG1
dbVarAGFG1
ClinVarAGFG1
1000_GenomesAGFG1 
Exome Variant ServerAGFG1
ExAC (Exome Aggregation Consortium)AGFG1 (select the gene name)
Genetic variants : HAPMAP3267
Genomic Variants (DGV)AGFG1 [DGVbeta]
DECIPHER (Syndromes)2:228336888-228425938  ENSG00000173744
CONAN: Copy Number AnalysisAGFG1 
Mutations
ICGC Data PortalAGFG1 
TCGA Data PortalAGFG1 
Broad Tumor PortalAGFG1
OASIS PortalAGFG1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICAGFG1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDAGFG1
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 AGFG1
DgiDB (Drug Gene Interaction Database)AGFG1
DoCM (Curated mutations)AGFG1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)AGFG1 (select a term)
intoGenAGFG1
Cancer3DAGFG1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600862   
Orphanet
MedgenAGFG1
Genetic Testing Registry AGFG1
NextProtP52594 [Medical]
TSGene3267
GENETestsAGFG1
Huge Navigator AGFG1 [HugePedia]
snp3D : Map Gene to Disease3267
BioCentury BCIQAGFG1
ClinGenAGFG1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3267
Chemical/Pharm GKB GenePA29449
Clinical trialAGFG1
Miscellaneous
canSAR (ICR)AGFG1 (select the gene name)
Probes
Litterature
PubMed54 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineAGFG1
EVEXAGFG1
GoPubMedAGFG1
iHOPAGFG1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 14:51:52 CEST 2017

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