Atlas of Genetics and Cytogenetics in Oncology and Haematology

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RNF40 (ring finger protein 40, E3 ubiquitin protein ligase)

Identity

Other namesBRE1B
RBP95
STARING
HGNC (Hugo) RNF40
LocusID (NCBI) 9810
Location 16p11.2
Location_base_pair Starts at 30772933 and ends at 30787628 bp from pter ( according to hg19-Feb_2009)
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)RNF40   16867
Cards
Entrez_Gene (NCBI)RNF40  9810  ring finger protein 40, E3 ubiquitin protein ligase
GeneCards (Weizmann)RNF40
Ensembl (Hinxton)ENSG00000103549 [Gene_View]  chr16:30772933-30787628 [Contig_View]  RNF40 [Vega]
ICGC DataPortalENSG00000103549
cBioPortalRNF40
AceView (NCBI)RNF40
Genatlas (Paris)RNF40
WikiGenes9810
SOURCE (Princeton)NM_001207033 NM_001207034 NM_001286572 NM_014771
Genomic and cartography
GoldenPath (UCSC)RNF40  -  16p11.2   chr16:30772933-30787628 +  16p11.2   [Description]    (hg19-Feb_2009)
EnsemblRNF40 - 16p11.2 [CytoView]
Mapping of homologs : NCBIRNF40 [Mapview]
OMIM607700   
Gene and transcription
Genbank (Entrez)AB014561 AF122819 AI373490 AK027406 AK054773
RefSeq transcript (Entrez)NM_001207033 NM_001207034 NM_001286572 NM_014771
RefSeq genomic (Entrez)AC_000148 NC_000016 NC_018927 NT_187260 NW_001838236 NW_004929400
Consensus coding sequences : CCDS (NCBI)RNF40
Cluster EST : UnigeneHs.65238 [ NCBI ]
CGAP (NCI)Hs.65238
Alternative Splicing : Fast-db (Paris)GSHG0011119
Alternative Splicing GalleryENSG00000103549
Gene ExpressionRNF40 [ NCBI-GEO ]     RNF40 [ SEEK ]   RNF40 [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75150 (Uniprot)
NextProtO75150  [Medical]
With graphics : InterProO75150
Splice isoforms : SwissVarO75150 (Swissvar)
Catalytic activity : Enzyme6.3.2.- [ Enzyme-Expasy ]   6.3.2.-6.3.2.- [ IntEnz-EBI ]   6.3.2.- [ BRENDA ]   6.3.2.- [ KEGG ]   
Domaine pattern : Prosite (Expaxy)ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)Znf_C3HC4_RING-type [organisation]   Znf_RING [organisation]   Znf_RING/FYVE/PHD [organisation]   Znf_RING_CS [organisation]  
Related proteins : CluSTrO75150
Domain families : Pfam (Sanger)zf-C3HC4 (PF00097)   
Domain families : Pfam (NCBI)pfam00097   
Domain families : Smart (EMBL)RING (SM00184)  
DMDM Disease mutations9810
Blocks (Seattle)O75150
Human Protein AtlasENSG00000103549 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasO75150
HPRD07411
IPIIPI00162563   IPI00377273   IPI00290648   IPI01013114   IPI00910246   IPI01012850   IPI00442235   IPI00921437   
Protein Interaction databases
DIP (DOE-UCLA)O75150
IntAct (EBI)O75150
FunCoupENSG00000103549
BioGRIDRNF40
InParanoidO75150
Interologous Interaction database O75150
IntegromeDBRNF40
STRING (EMBL)RNF40
Ontologies - Pathways
Ontology : AmiGOubiquitin ligase complex  ubiquitin-protein transferase activity  protein binding  nucleus  ubiquitin-dependent protein catabolic process  zinc ion binding  histone monoubiquitination  membrane  ligase activity  syntaxin-1 binding  ubiquitin protein ligase binding  protein complex binding  HULC complex  histone H2B ubiquitination  protein homodimerization activity  neuron projection  
Ontology : EGO-EBIubiquitin ligase complex  ubiquitin-protein transferase activity  protein binding  nucleus  ubiquitin-dependent protein catabolic process  zinc ion binding  histone monoubiquitination  membrane  ligase activity  syntaxin-1 binding  ubiquitin protein ligase binding  protein complex binding  HULC complex  histone H2B ubiquitination  protein homodimerization activity  neuron projection  
Protein Interaction DatabaseRNF40
Wikipedia pathwaysRNF40
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)RNF40
snp3D : Map Gene to Disease9810
SNP (GeneSNP Utah)RNF40
SNP : HGBaseRNF40
Genetic variants : HAPMAPRNF40
Exome VariantRNF40
1000_GenomesRNF40 
ICGC programENSG00000103549 
Somatic Mutations in Cancer : COSMICRNF40 
CONAN: Copy Number AnalysisRNF40 
Mutations and Diseases : HGMDRNF40
Genomic VariantsRNF40  RNF40 [DGVbeta]
dbVarRNF40
ClinVarRNF40
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM607700   
MedgenRNF40
GENETestsRNF40
Disease Genetic AssociationRNF40
Huge Navigator RNF40 [HugePedia]  RNF40 [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneRNF40
Homology/Alignments : Family Browser (UCSC)RNF40
Phylogenetic Trees/Animal Genes : TreeFamRNF40
Chemical/Protein Interactions : CTD9810
Chemical/Pharm GKB GenePA34440
Clinical trialRNF40
Cancer Resource (Charite)ENSG00000103549
Other databases
Probes
Litterature
PubMed35 Pubmed reference(s) in Entrez
CoreMineRNF40
iHOPRNF40
OncoSearchRNF40
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jul 30 14:13:30 CEST 2014
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