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RNF223 Gene

protein-coding   GIFtS: 28
GCID: GC01M001009

Ring Finger Protein 223

  Search for RNF223
at  

(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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Aliases
Ring Finger Protein 2231 2

External Ids:    HGNC: 400201   Entrez Gene: 4019342   Ensembl: ENSG000002373307   UniProtKB: E7ERA63   

Export aliases for RNF223 gene to outside databases


(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 RNF223 Gene:
RNF223 (ring finger protein 223) is a protein-coding gene. An important paralog of this gene is RNF183.


(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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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_032977.10  
Regulatory elements:
   Search for regulatory transcription factor binding sites for RNF223
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RNF223


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

Entrez Gene cytogenetic band: 1p36.33   Ensembl cytogenetic band:  1p36.33   HGNC cytogenetic band: 1p36.33

RNF223 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNF223 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M001009:  view genomic region     (about GC identifiers)

Start:
1,006,346 bp from pter      End:
1,009,687 bp from pter
Size:
3,342 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., and/or eBioscience,
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UniProtKB/Swiss-Prot: RN223_HUMAN, E7ERA6 (See protein sequence)
Recommended Name: RING finger protein 223  
Size: 249 amino acids; 26629 Da
Secondary accessions: B4DKI4

Explore the universe of human proteins at neXtProt for RNF223: NX_E7ERA6

Explore proteomics data for RNF223 at MOPED


See RNF223 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001192181.1  
ENSEMBL proteins: 
 ENSP00000410533  

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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 E7ERA6

ProtoNet protein and cluster: E7ERA6

UniProtKB/Swiss-Prot: RN223_HUMAN, E7ERA6
Similarity: Contains 1 RING-type zinc finger


Find genes that share domains with RNF223           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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): 3 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
GO:0008270zinc ion binding IEA--
GO:0046872metal ion binding ----
     
Find genes that share ontologies with RNF223           About GenesLikeMe


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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
RN223_HUMAN, E7ERA6: Membrane; Single-pass membrane protein (Potential)

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 RNF223           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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Interactions:

    Search GeneGlobe Interaction Network for RNF223

(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 Tocris compounds for RNF223 (RN223)



(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 RNF223 gene: 
NM_001205252.1  

Unigene Cluster for RNF223:

Ring finger protein 223
Hs.568137  [show with all ESTs]
Unigene Representative Sequence: AK296576
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000453464(uc021oen.1)
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Additional mRNA sequence: AK296576.1 

1 DOTS entry:

DT.75109241 

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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RNF223 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GGGCGTCCCC
RNF223 Expression
About this image

RNF223 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

RNF223 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.568137
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(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 chordates.

Orthologs for RNF223 gene from Selected species (see all 8)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Rnf2231 , 5 RIKEN cDNA 9930005F22 gene5
ring finger 2231
75.64(n)1
76.71(a)1
  4 (88.44 cM)5
1000457781  NM_001220499.11  NP_001207428.11 
 1561321705 
chicken
(Gallus gallus)
Aves RNF2231 ring finger protein 223 59.94(n)
52.75(a)
  419428  XM_417589.3  XP_417589.1 
lizard
(Anolis carolinensis)
Reptilia RNF2236
ring finger protein 223
49(a)
1 ↔ 1
GL343647.1(43538-44377)
tropical clawed frog
(Xenopus tropicalis)
Amphibia rnf2231 ring finger protein 223 56.4(n)
55.81(a)
  100492332  XM_004916525.1  XP_004916582.1 
zebrafish
(Danio rerio)
Actinopterygii LOC1018838311 RING finger protein 223-like 52.79(n)
46.82(a)
  101883831  XM_005162206.1  XP_005162263.1 


ENSEMBL Gene Tree for RNF223 (if available)
TreeFam Gene Tree for RNF223 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for RNF223 gene
RNF1832  LOC6468622  

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1 Pseudogenes.org Pseudogene for RNF223
PGOHUM00000259437


(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 RNF223 (see all 105)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1869754121,2
--998888(+) GCTGAA/GGCTAT 1 -- us2k10--------
rs1915263421,2
--998893(+) GGCTAC/TGGTGA 1 -- us2k10--------
rs1843738141,2
--998896(+) TATGGG/TGACTC 1 -- us2k10--------
rs729004991,2
C,F--1006644(+) TGTACG/AAGCCT 1 -- ds50011Minor allele frequency- A:0.50WA 2
rs1912698101,2
--1006741(+) CACCTA/CCCCGG 1 -- ds50010--------
rs1858507551,2
--1006799(+) CACCAC/TGATGC 1 -- ds50010--------
rs1427746111,2
--1006804(+) CGATGC/TCCGGT 1 -- ds50010--------
rs43265711,2
C,F,H--1006990(+) ACCCCA/GTCAGG 1 -- ds500113Minor allele frequency- G:0.15NA WA CSA EA 376
rs115778291,2
H--1007065(+) GAGTCC/TTCAGA 1 -- ds50010--------
rs1159083301,2
C,F--1007131(+) TTGGGA/C/TCCCCC 2 -- ut311NA 120

HapMap Linkage Disequilibrium report for RNF223 (1006346 - 1009687 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for RNF223 (see all 19):    About this table    
Variant IDTypeSubtypePubMed ID
nsv509146CNV Insertion20534489
nsv470680CNV Loss18288195
dgv9n71CNV Loss21882294
nsv870874CNV Loss21882294
dgv12n71CNV Loss21882294
nsv871349CNV Loss21882294
dgv10n71CNV Loss21882294
dgv13n71CNV Loss21882294
dgv11n71CNV Loss21882294
nsv871547CNV Loss21882294

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(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 RNF223 gene integrated from 10 sources:
(articles sorted by number of sources associating them with RNF223)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (Nature 2006)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 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: 401934 HGNC: 40020 Ensembl:ENSG00000237330 euGenes: HUgn401934 ECgene: RNF223
H-InvDB: RNF223

(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 RNF223 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 RNF223 gene:
Search GeneIP for patents involving RNF223

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



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