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RNF183 Gene

protein-coding   GIFtS: 44
GCID: GC09M116059

Ring Finger Protein 183

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Ring Finger Protein 1831 2

External Ids:    HGNC: 287211   Entrez Gene: 1380652   Ensembl: ENSG000001651887   UniProtKB: Q96D593   
ORGUL members:         

Export aliases for RNF183 gene to outside databases

Previous GC identifers: GC09M113139 GC09M115099 GC09M085666


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for RNF183 Gene:
RNF183 (ring finger protein 183) is a protein-coding gene. An important paralog of this gene is LOC646862.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the RNF183 gene promoter:
         GR   RP58   p300   HNF-1   FOXJ2 (long isoform)   FOXJ2   HNF-1A   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRNF183 promoter sequence
   Search Chromatin IP Primers for RNF183

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RNF183


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 9q32   Ensembl cytogenetic band:  9q32   HGNC cytogenetic band: 9q32

RNF183 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNF183 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M116059:  view genomic region     (about GC identifiers)

Start:
116,059,373 bp from pter      End:
116,065,656 bp from pter
Size:
6,284 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: RN183_HUMAN, Q96D59 (See protein sequence)
Recommended Name: RING finger protein 183  
Size: 192 amino acids; 21675 Da

Explore the universe of human proteins at neXtProt for RNF183: NX_Q96D59

Explore proteomics data for RNF183 at MOPED


See RNF183 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_659488.2  
ENSEMBL proteins: 
 ENSP00000417176   ENSP00000420740   ENSP00000419454   ENSP00000417943  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
RNF: RING-type (C3HC4) zinc fingers

3 InterPro protein domains:
 IPR017907 Znf_RING_CS
 IPR001841 Znf_RING
 IPR013083 Znf_RING/FYVE/PHD

Graphical View of Domain Structure for InterPro Entry Q96D59

ProtoNet protein and cluster: Q96D59

1 Blocks protein domain: IPB001841 Zn-finger

UniProtKB/Swiss-Prot: RN183_HUMAN, Q96D59
Similarity: Contains 1 RING-type zinc finger


Find genes that share domains with RNF183           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
GO:0008270zinc ion binding IEA--
     
Find genes that share ontologies with RNF183           About GenesLikeMe


Phenotypes:
     1 GenomeRNAi human phenotype for RNF183:
 Increased cell number in S 

     1 MGI phenotypic allele for Rnf183 (no phenotypes)

Find genes that share phenotypes with RNF183           About GenesLikeMe

Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for RNF183

miRNA
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miRTarBase miRNAs that target RNF183:
hsa-mir-335-5p (MIRT019218)

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Selected qRT-PCR Assays for microRNAs that regulate RNF183 (see all 17):
hsa-miR-15a hsa-miR-1271 hsa-miR-938 hsa-miR-424 hsa-miR-129-3p hsa-miR-195 hsa-miR-129* hsa-miR-15b
SwitchGear 3'UTR luciferase reporter plasmidRNF183 3' UTR sequence
Inhib. RNA
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
RN183_HUMAN, Q96D59: Membrane; Single-pass membrane protein (Potential)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus3
plasma membrane3

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016021integral component of membrane IEA--

Find genes that share ontologies with RNF183           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for RNF183
Interactions:

    Search GeneGlobe Interaction Network for RNF183

STRING Interaction Network Preview (showing 5 interactants - click image to see more details)

Selected Interacting proteins for RNF183 (Q96D592, 3 ENSP000004207404) via UniProtKB, MINT, STRING, and/or I2D (see all 12)
InteractantInteraction Details
GeneCardExternal ID(s)
FATE1Q969F02, 3, ENSP000003593754MINT-66409 I2D: score=4 STRING: ENSP00000359375
KXD1Q9BQD32, 3, ENSP000002223074MINT-67419 I2D: score=3 STRING: ENSP00000222307
IFFO1Q0D2I53, ENSP000003493644I2D: score=3 STRING: ENSP00000349364
FBP1P094673, ENSP000003644754I2D: score=3 STRING: ENSP00000364475
EWSR1Q018443, ENSP000003810314I2D: score=2 STRING: ENSP00000381031
About this table

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
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Browse Tocris compounds for RNF183 (RN183)



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for RNF183 gene: 
NM_145051.3  

7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000441031(uc004bgz.3) ENST00000416588 ENST00000478815(uc022bmd.1)
ENST00000297894(uc004bha.3) ENST00000478493 ENST00000489339 ENST00000443976

miRNA
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Selected qRT-PCR Assays for microRNAs that regulate RNF183 (see all 17):
hsa-miR-15a hsa-miR-1271 hsa-miR-938 hsa-miR-424 hsa-miR-129-3p hsa-miR-195 hsa-miR-129* hsa-miR-15b
SwitchGear 3'UTR luciferase reporter plasmidRNF183 3' UTR sequence
Inhib. RNA
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  QuantiFast Probe-based Assays in human, mouse, rat RNF183

Selected AceView cDNA sequences (see all 29):

AW139879 BE463594 AA928883 AX747267 AK055759 BE326299 NM_145051 AW614405 
BF448088 BI494082 AI923733 BC013036 BE501488 AA514593 AI860474 BE468156 
AK091940 AA337967 AI244282 AI889386 BE266322 BM797555 BI494083 BE796148 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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RNF183 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GAAGGGCAGA
RNF183 Expression
About this image


RNF183 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 2) fully expand
 
 Skeletal Muscle (Muscoskeletal System)    fully expand to see all 2 entries
         Myoblasts Mandibular Arch Muscles
 
 Kidney (Urinary System)
RNF183 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

RNF183 Protein Expression
    Custom PCR Arrays for RNF183
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RNF183

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of human and mouse.

Orthologs for RNF183 gene from Selected species (see all 6)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Rnf1831 , 5 ring finger protein 1831, 5 85.79(n)1
88.42(a)1
  4 (33.13 cM)5
760721  NM_153504.31  NP_705724.11 
 624275405 


ENSEMBL Gene Tree for RNF183 (if available)
TreeFam Gene Tree for RNF183 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for RNF183 gene
LOC6468622  RNF2232  

Find genes that share paralogs with RNF183           About GenesLikeMe



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for RNF183 (see all 136)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 9 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1379772901,2
--116058963(+) CCCCCA/GCTGCC 1 -- ds50010--------
rs1839466201,2
--116059006(+) CCTGTG/TTCCAG 1 -- ds50010--------
rs108174751,2
C,F,A,H--116059054(+) GGGGAA/GGGGAA 1 -- ds500119Minor allele frequency- G:0.22NS EA NA CSA WA 2344
rs1494063711,2
--116059071(+) CTCTAC/GCCCAT 1 -- ds50010--------
rs749279881,2
F--116059107(+) TCTGCC/TGGGAG 1 -- ds50011Minor allele frequency- T:0.09WA 118
rs1128378661,2
F--116059207(+) AACTAC/TATGCT 1 -- ds50011Minor allele frequency- T:0.50CSA 2
rs1481712371,2
--116059304(+) TACTCC/TTCTCT 1 -- ds50010--------
rs2012153381,2
--116059390(+) GAACA-/CTTTTA 1 -- ut310--------
rs1901954301,2
--116059444(+) TTACCA/CACAGA 1 -- ut310--------
rs342626871,2
C--116059468(+) CCCAA-/TTTTTT 1 -- ut310--------

HapMap Linkage Disequilibrium report for RNF183 (116059373 - 116065656 bp)

Structural Variations
     Database of Genomic Variants (DGV) 1 variation for RNF183:    About this table    
Variant IDTypeSubtypePubMed ID
nsv893744CNV Gain21882294

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing RNF183
DNA2.0 Custom Variant and Variant Library Synthesis for RNF183

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for RNF183 gene integrated from 10 sources:
(articles sorted by number of sources associating them with RNF183)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  3. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
  4. Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (Nature 2005)
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 138065 HGNC: 28721 AceView: MGC4734 Ensembl:ENSG00000165188 euGenes: HUgn138065
ECgene: RNF183 H-InvDB: RNF183

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for RNF183 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for RNF183 gene:
Search GeneIP for patents involving RNF183

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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 Antibodies for RNF183
 ELISAs for RNF183
 CLIAs for RNF183



 Browse ESI BIO Cell Lines and PureStem Progenitors for RNF183
 Gene Synthesis
 Protein Engineering
 Variant Library Synthesis
 Codon Optimization
 Protein Production and Purification
 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RNF183
 SwitchGear 3'UTR luciferase reporter plasmids for RNF183
 SwitchGear Promoter luciferase reporter plasmids for RNF183
 ThermoFisher Antibodies for RNF183
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RNF183
 Browse compounds at ApexBio
 Search Addgene for plasmids for RNF183
  Search eBioscience for proteins for RNF183
  Search eBioscience for elisas for RNF183
  eBioscience FlowRNA Probe Sets
 genOway: Develop your customized and physiologically relevant rodent model for RNF183
 antibodies-online antibodies for RNF183 (11 products)
 antibodies-online kits for RNF183 (6 products)
 antibodies-online peptides for RNF183
 antibodies-online proteins for RNF183 (2 products)
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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