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RNF39 (ring finger protein 39)

Identity

Alias_symbol (synonym)HZFw1
LIRF
Other aliasHZF
HZFW
HGNC (Hugo) RNF39
LocusID (NCBI) 80352
Atlas_Id 47091
Location 6p22.1  [Link to chromosome band 6p22]
Location_base_pair Starts at 30070266 and ends at 30075849 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)RNF39   18064
Cards
Entrez_Gene (NCBI)RNF39  80352  ring finger protein 39
AliasesHZF; HZFW; LIRF
GeneCards (Weizmann)RNF39
Ensembl hg19 (Hinxton)ENSG00000204618 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204618 [Gene_View]  ENSG00000204618 [Sequence]  chr6:30070266-30075849 [Contig_View]  RNF39 [Vega]
ICGC DataPortalENSG00000204618
TCGA cBioPortalRNF39
AceView (NCBI)RNF39
Genatlas (Paris)RNF39
WikiGenes80352
SOURCE (Princeton)RNF39
Genetics Home Reference (NIH)RNF39
Genomic and cartography
GoldenPath hg38 (UCSC)RNF39  -     chr6:30070266-30075849 -  6p22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RNF39  -     6p22.1   [Description]    (hg19-Feb_2009)
EnsemblRNF39 - 6p22.1 [CytoView hg19]  RNF39 - 6p22.1 [CytoView hg38]
Mapping of homologs : NCBIRNF39 [Mapview hg19]  RNF39 [Mapview hg38]
OMIM607524   
Gene and transcription
Genbank (Entrez)AF238315 AF238316 AF238317 CA311242
RefSeq transcript (Entrez)NM_025236 NM_170769 NM_170770
RefSeq genomic (Entrez)NC_000006 NT_113891 NT_167244 NT_167245 NT_167246 NT_167247 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)RNF39
Cluster EST : UnigeneHs.121178 [ NCBI ]
CGAP (NCI)Hs.121178
Alternative Splicing GalleryENSG00000204618
Gene ExpressionRNF39 [ NCBI-GEO ]   RNF39 [ EBI - ARRAY_EXPRESS ]   RNF39 [ SEEK ]   RNF39 [ MEM ]
Gene Expression Viewer (FireBrowse)RNF39 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)80352
GTEX Portal (Tissue expression)RNF39
Human Protein AtlasENSG00000204618-RNF39 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H2S5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H2S5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H2S5
Splice isoforms : SwissVarQ9H2S5
PhosPhoSitePlusQ9H2S5
Domaine pattern : Prosite (Expaxy)B302_SPRY (PS50188)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)B30.2/SPRY    Butyrophylin_SPRY    ConA-like_dom_sf    PRY    SPRY_dom    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)PRY (PF13765)   
Domain families : Pfam (NCBI)pfam13765   
Domain families : Smart (EMBL)PRY (SM00589)  RING (SM00184)  SPRY (SM00449)  
Conserved Domain (NCBI)RNF39
DMDM Disease mutations80352
Blocks (Seattle)RNF39
SuperfamilyQ9H2S5
Human Protein Atlas [tissue]ENSG00000204618-RNF39 [tissue]
Peptide AtlasQ9H2S5
HPRD09600
IPIIPI00252162   IPI00041053   IPI00515028   IPI00640556   IPI00643966   IPI00894246   IPI00893629   
Protein Interaction databases
DIP (DOE-UCLA)Q9H2S5
IntAct (EBI)Q9H2S5
FunCoupENSG00000204618
BioGRIDRNF39
STRING (EMBL)RNF39
ZODIACRNF39
Ontologies - Pathways
QuickGOQ9H2S5
Ontology : AmiGOcellular_component  cytoplasm  biological_process  metal ion binding  
Ontology : EGO-EBIcellular_component  cytoplasm  biological_process  metal ion binding  
NDEx NetworkRNF39
Atlas of Cancer Signalling NetworkRNF39
Wikipedia pathwaysRNF39
Orthology - Evolution
OrthoDB80352
GeneTree (enSembl)ENSG00000204618
Phylogenetic Trees/Animal Genes : TreeFamRNF39
HOVERGENQ9H2S5
HOGENOMQ9H2S5
Homologs : HomoloGeneRNF39
Homology/Alignments : Family Browser (UCSC)RNF39
Gene fusions - Rearrangements
Fusion : QuiverRNF39
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRNF39 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RNF39
dbVarRNF39
ClinVarRNF39
1000_GenomesRNF39 
Exome Variant ServerRNF39
ExAC (Exome Aggregation Consortium)ENSG00000204618
GNOMAD BrowserENSG00000204618
Varsome BrowserRNF39
Genetic variants : HAPMAP80352
Genomic Variants (DGV)RNF39 [DGVbeta]
DECIPHERRNF39 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRNF39 
Mutations
ICGC Data PortalRNF39 
TCGA Data PortalRNF39 
Broad Tumor PortalRNF39
OASIS PortalRNF39 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRNF39  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRNF39
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 RNF39
DgiDB (Drug Gene Interaction Database)RNF39
DoCM (Curated mutations)RNF39 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RNF39 (select a term)
intoGenRNF39
Cancer3DRNF39(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607524   
Orphanet
DisGeNETRNF39
MedgenRNF39
Genetic Testing Registry RNF39
NextProtQ9H2S5 [Medical]
TSGene80352
GENETestsRNF39
Target ValidationRNF39
Huge Navigator RNF39 [HugePedia]
snp3D : Map Gene to Disease80352
BioCentury BCIQRNF39
ClinGenRNF39
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD80352
Chemical/Pharm GKB GenePA134949953
Clinical trialRNF39
Miscellaneous
canSAR (ICR)RNF39 (select the gene name)
Probes
Litterature
PubMed19 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRNF39
EVEXRNF39
GoPubMedRNF39
iHOPRNF39
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 6 11:36:06 CET 2018

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