Atlas of Genetics and Cytogenetics in Oncology and Haematology

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RNF40 (ring finger protein 40)

Identity

Alias (NCBI)BRE1B
RBP95
STARING
HGNC (Hugo) RNF40
HGNC Alias symbKIAA0661
RBP95
BRE1B
STARING
HGNC Alias nameBRE1 E3 ubiquitin ligase homolog B (S. cerevisiae)
LocusID (NCBI) 9810
Atlas_Id 42138
Location 16p11.2  [Link to chromosome band 16p11]
Location_base_pair Starts at 30762322 and ends at 30776307 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)
GTF3C6 (6q21) / RNF40 (16p11.2)RNF40 (16p11.2) / PLK1 (16p12.2)RNF40 (16p11.2) / RNF40 (16p11.2)
RNF40 16p11.2 / PLK1 16p12.2

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    ring finger protein 40
AliasesBRE1B; RBP95; STARING
GeneCards (Weizmann)RNF40
Ensembl hg19 (Hinxton)ENSG00000103549 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000103549 [Gene_View]  ENSG00000103549 [Sequence]  chr16:30762322-30776307 [Contig_View]  RNF40 [Vega]
ICGC DataPortalENSG00000103549
TCGA cBioPortalRNF40
AceView (NCBI)RNF40
Genatlas (Paris)RNF40
SOURCE (Princeton)RNF40
Genetics Home Reference (NIH)RNF40
Genomic and cartography
GoldenPath hg38 (UCSC)RNF40  -     chr16:30762322-30776307 +  16p11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RNF40  -     16p11.2   [Description]    (hg19-Feb_2009)
GoldenPathRNF40 - 16p11.2 [CytoView hg19]  RNF40 - 16p11.2 [CytoView hg38]
ImmunoBaseENSG00000103549
Genome Data Viewer NCBIRNF40 [Mapview hg19]  
OMIM607700   
Gene and transcription
Genbank (Entrez)AB014561 AF122819 AI373490 AK027406 AK054773
RefSeq transcript (Entrez)NM_001207033 NM_001207034 NM_001286572 NM_014771
Consensus coding sequences : CCDS (NCBI)RNF40
Gene ExpressionRNF40 [ NCBI-GEO ]   RNF40 [ EBI - ARRAY_EXPRESS ]   RNF40 [ SEEK ]   RNF40 [ MEM ]
Gene Expression Viewer (FireBrowse)RNF40 [ Firebrowse - Broad ]
GenevisibleExpression of RNF40 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9810
GTEX Portal (Tissue expression)RNF40
Human Protein AtlasENSG00000103549-RNF40 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75150   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75150  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75150
PhosPhoSitePlusO75150
Domaine pattern : Prosite (Expaxy)ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)E3_ubiquit_lig_Bre1    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Domain families : Smart (EMBL)RING (SM00184)  
Conserved Domain (NCBI)RNF40
SuperfamilyO75150
AlphaFold pdb e-kbO75150   
Human Protein Atlas [tissue]ENSG00000103549-RNF40 [tissue]
HPRD07411
Protein Interaction databases
DIP (DOE-UCLA)O75150
IntAct (EBI)O75150
BioGRIDRNF40
STRING (EMBL)RNF40
ZODIACRNF40
Ontologies - Pathways
QuickGOO75150
Ontology : AmiGOubiquitin ligase complex  mRNA 3'-UTR binding  ubiquitin-protein transferase activity  protein binding  nucleus  nucleoplasm  nucleoplasm  cytosol  ubiquitin-dependent protein catabolic process  regulation of mitotic cell cycle  histone monoubiquitination  membrane  protein ubiquitination  syntaxin-1 binding  extrinsic component of membrane  ubiquitin conjugating enzyme binding  ubiquitin protein ligase binding  HULC complex  histone H2B ubiquitination  protein homodimerization activity  neuron projection  response to peptide hormone  axon terminus  protein-containing complex binding  metal ion binding  negative regulation of mRNA polyadenylation  positive regulation of proteasomal protein catabolic process  positive regulation of protein polyubiquitination  positive regulation of histone H2B ubiquitination  
Ontology : EGO-EBIubiquitin ligase complex  mRNA 3'-UTR binding  ubiquitin-protein transferase activity  protein binding  nucleus  nucleoplasm  nucleoplasm  cytosol  ubiquitin-dependent protein catabolic process  regulation of mitotic cell cycle  histone monoubiquitination  membrane  protein ubiquitination  syntaxin-1 binding  extrinsic component of membrane  ubiquitin conjugating enzyme binding  ubiquitin protein ligase binding  HULC complex  histone H2B ubiquitination  protein homodimerization activity  neuron projection  response to peptide hormone  axon terminus  protein-containing complex binding  metal ion binding  negative regulation of mRNA polyadenylation  positive regulation of proteasomal protein catabolic process  positive regulation of protein polyubiquitination  positive regulation of histone H2B ubiquitination  
NDEx NetworkRNF40
Atlas of Cancer Signalling NetworkRNF40
Wikipedia pathwaysRNF40
Orthology - Evolution
OrthoDB9810
GeneTree (enSembl)ENSG00000103549
Phylogenetic Trees/Animal Genes : TreeFamRNF40
Homologs : HomoloGeneRNF40
Homology/Alignments : Family Browser (UCSC)RNF40
Gene fusions - Rearrangements
Fusion : MitelmanRNF40/PLK1 [16p11.2/16p12.2]  
Fusion : QuiverRNF40
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRNF40 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RNF40
dbVarRNF40
ClinVarRNF40
MonarchRNF40
1000_GenomesRNF40 
Exome Variant ServerRNF40
GNOMAD BrowserENSG00000103549
Varsome BrowserRNF40
ACMGRNF40 variants
VarityO75150
Genomic Variants (DGV)RNF40 [DGVbeta]
DECIPHERRNF40 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRNF40 
Mutations
ICGC Data PortalRNF40 
TCGA Data PortalRNF40 
Broad Tumor PortalRNF40
OASIS PortalRNF40 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRNF40  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DRNF40
Mutations and Diseases : HGMDRNF40
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaRNF40
DgiDB (Drug Gene Interaction Database)RNF40
DoCM (Curated mutations)RNF40
CIViC (Clinical Interpretations of Variants in Cancer)RNF40
Cancer3DRNF40
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607700   
Orphanet
DisGeNETRNF40
MedgenRNF40
Genetic Testing Registry RNF40
NextProtO75150 [Medical]
GENETestsRNF40
Target ValidationRNF40
Huge Navigator RNF40 [HugePedia]
ClinGenRNF40
Clinical trials, drugs, therapy
MyCancerGenomeRNF40
Protein Interactions : CTDRNF40
Pharm GKB GenePA34440
PharosO75150
Clinical trialRNF40
Miscellaneous
canSAR (ICR)RNF40
HarmonizomeRNF40
DataMed IndexRNF40
Probes
Litterature
PubMed84 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXRNF40
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 15:29:18 CEST 2021
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