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RNF4 Gene

protein-coding   GIFtS: 62
GCID: GC04P002463

Ring Finger Protein 4

  Search for RNF4
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 41 2 3     E3 Ubiquitin Ligase RNF42
Small Nuclear Ring Finger Protein2 3     E3 Ubiquitin-Protein Ligase RNF42
SNURF2 3     EC 6.3.2.-3
SLX52     Protein SNURF3

External Ids:    HGNC: 100671   Entrez Gene: 60472   Ensembl: ENSG000000639787   OMIM: 6028505   UniProtKB: P783173   

Export aliases for RNF4 gene to outside databases

Previous GC identifers: GC04P002465 GC04P002337 GC04P002432 GC04P002438 GC04P002410


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for RNF4 Gene:
The protein encoded by this gene contains a RING finger motif and acts as a transcription regulator. This protein
has been shown to interact with, and inhibit the activity of, TRPS1, a transcription suppressor of GATA-mediated
transcription. Transcription repressor ZNF278/PATZ is found to interact with this protein, and thus reduce the
enhancement of androgen receptor-dependent transcription mediated by this protein. Studies of the mouse and rat
counterparts suggested a role of this protein in spermatogenesis. A pseudogene of this gene is found on
chromosome 1.(provided by RefSeq, Jul 2010)

GeneCards Summary for RNF4 Gene:
RNF4 (ring finger protein 4) is a protein-coding gene. GO annotations related to this gene include ubiquitin-protein ligase activity and sequence-specific DNA binding transcription factor activity.

UniProtKB/Swiss-Prot: RNF4_HUMAN, P78317
Function: E3 ubiquitin-protein ligase which binds polysumoylated chains covalently attached to proteins and
mediates 'Lys-6'-, 'Lys-11'-, 'Lys-48'- and 'Lys-63'-linked polyubiquitination of those substrates and their
subsequent targeting to the proteasome for degradation. Regulates the degradation of several proteins including
PML and the transcriptional activator PEA3. Involved in chromosome alignment and spindle assembly, it regulates
the kinetochore CENPH-CENPI-CENPK complex by targeting polysumoylated CENPI to proteasomal degradation. Regulates
the cellular responses to hypoxia and heat shock through degradation of respectively EPAS1 and PARP1.
Alternatively, it may also bind DNA/nucleosomes and have a more direct role in the regulation of transcription
for instance enhancing basal transcription and steroid receptor-mediated transcriptional activation

Gene Wiki entry for RNF4 Gene


(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_000004.11  NC_018915.2  NT_006051.19  
Regulatory elements:
   Regulatory transcription factor binding sites in the RNF4 gene promoter:
         HEN1   PPAR-gamma1   NF-1   Nkx6-1   Pax-2   HNF-4alpha2   PPAR-gamma2   Pax-2a   HNF-4alpha1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRNF4 promoter sequence
   Search Chromatin IP Primers for RNF4

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RNF4


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

Entrez Gene cytogenetic band: 4p16.3   Ensembl cytogenetic band:  4p16.3   HGNC cytogenetic band: 4p16.3

RNF4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNF4 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P002463:  view genomic region     (about GC identifiers)

Start:
2,463,947 bp from pter      End:
2,627,047 bp from pter
Size:
163,101 bases      Orientation:
plus 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,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: RNF4_HUMAN, P78317 (See protein sequence)
Recommended Name: E3 ubiquitin-protein ligase RNF4  
Size: 190 amino acids; 21319 Da
Subunit: Homodimer (via RING-type zinc finger domain). Interacts with GSC2 (By similarity). Interacts with AR/the
androgen receptor and TBP (By similarity). Interacts with TCF20 (By similarity). Interacts with PATZ1. Interacts
with TRPS1; negatively regulates TRPS1 transcriptional repressor activity. Interacts with PML; SUMO1-dependent.
Interacts with PML; SUMO2-dependent. Interacts with PARP1. Interacts with PML (isoform PML-1, isoform PML-2,
isoform PML-3, isoform PML-4, isoform PML-5 and isoform PML-6)
2 PDB 3D structures from and Proteopedia for RNF4:
2EA6 (3D)        2XEU (3D)    
Secondary accessions: B2R6D6 D6RF58 Q49AR8
Alternative splicing: 2 isoforms:  P78317-1   P78317-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for RNF4: NX_P78317

Explore proteomics data for RNF4 at MOPED

Post-translational modifications: 

  • Sumoylated; conjugated by one or two SUMO1 moieties (By similarity)1
  • Autoubiquitinated (By similarity)1
  • Ubiquitination2 at Lys168
  • Modification sites at PhosphoSitePlus

  • See RNF4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001171938.1  NP_001171939.1  NP_002929.1  

    ENSEMBL proteins: 
     ENSP00000423186   ENSP00000425667   ENSP00000315212   ENSP00000423100   ENSP00000422728  
     ENSP00000422500   ENSP00000425724   ENSP00000422938   ENSP00000426615   ENSP00000424076  
     ENSP00000426503   ENSP00000422619   ENSP00000427212   ENSP00000446369  
    Reactome Protein details: P78317

    RNF4 Human Recombinant Protein Products:

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    Novus Biologicals RNF4 Proteins
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    Cloud-Clone Corp. Proteins for RNF4

     
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    LSBio Antibodies in human, mouse, rat for RNF4

    RNF4 Assay Products:

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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 P78317

    ProtoNet protein and cluster: P78317

    1 Blocks protein domain: IPB001841 Zn-finger

    UniProtKB/Swiss-Prot: RNF4_HUMAN, P78317
    Domain: The RING-type zinc finger domain is required for the ubiquitination of polysumoylated substrates (By
    similarity)
    Similarity: Contains 1 RING-type zinc finger


    Find genes that share domains with RNF4           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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: RNF4_HUMAN, P78317
    Function: E3 ubiquitin-protein ligase which binds polysumoylated chains covalently attached to proteins and
    mediates 'Lys-6'-, 'Lys-11'-, 'Lys-48'- and 'Lys-63'-linked polyubiquitination of those substrates and their
    subsequent targeting to the proteasome for degradation. Regulates the degradation of several proteins including
    PML and the transcriptional activator PEA3. Involved in chromosome alignment and spindle assembly, it regulates
    the kinetochore CENPH-CENPI-CENPK complex by targeting polysumoylated CENPI to proteasomal degradation. Regulates
    the cellular responses to hypoxia and heat shock through degradation of respectively EPAS1 and PARP1.
    Alternatively, it may also bind DNA/nucleosomes and have a more direct role in the regulation of transcription
    for instance enhancing basal transcription and steroid receptor-mediated transcriptional activation

         Genatlas biochemistry entry for RNF4:
    RING finger protein 4,abundantly expressed in fetal tissues,involved in the protein and DNA association in the
    nucleus of the cell

         Enzyme Number (IUBMB): EC 6.3.2.-1

         Gene Ontology (GO): Selected molecular function terms (see all 13):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding ISS--
    GO:0003700sequence-specific DNA binding transcription factor activity TAS9710597
    GO:0003713transcription coactivator activity NAS15572661
    GO:0004842ubiquitin-protein ligase activity ISS--
    GO:0005515protein binding IPI12885770
         
    Find genes that share ontologies with RNF4           About GenesLikeMe


    Phenotypes:
         3 MGI mutant phenotypes (inferred from 1 allele(MGI details for Rnf4):
     cardiovascular system  cellular  mortality/aging 

    Find genes that share phenotypes with RNF4           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RNF4
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for RNF4

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    miRNA
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    hsa-mir-221-3p (MIRT024183), hsa-mir-769-3p (MIRT039131), hsa-mir-361-5p (MIRT020102), hsa-mir-19a-3p (MIRT050642), hsa-mir-18b-5p (MIRT042409), hsa-mir-151a-3p (MIRT043602), hsa-mir-18a-5p (MIRT050699), hsa-mir-222-3p (MIRT046803)

    Block miRNA regulation of human, mouse, rat RNF4 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate RNF4 (see all 52):
    hsa-miR-3678-3p hsa-miR-607 hsa-miR-106a hsa-miR-146a hsa-miR-200a hsa-miR-25 hsa-miR-3921 hsa-miR-650
    SwitchGear 3'UTR luciferase reporter plasmidRNF4 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat RNF4

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector (see all 3): RNF4 (NM_001185009)
    Sino Biological Human cDNA Clone for RNF4
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RNF4


    (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
    RNF4_HUMAN, P78317: Cytoplasm. Nucleus. Nucleus, PML body. Nucleus, nucleoplasm
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytoskeleton4
    cytosol2

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA12885770
    GO:0005737cytoplasm IDA12885770
    GO:0015630microtubule cytoskeleton ----
    GO:0016605colocalizes with PML body IDA--

    Find genes that share ontologies with RNF4           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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    SuperPaths for RNF4 About    
    See pathways by source

    SuperPathContained pathways About
    1Class I MHC mediated antigen processing and presentation
    Class I MHC mediated antigen processing and presentation0.84
    Adaptive Immune System0.41
    Antigen processing- Ubiquitination and Proteasome degradation0.84
    2Androgen receptor signaling pathway
    Androgen receptor signaling pathway


    Find genes that share SuperPaths with RNF4           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 BioSystems Pathway for RNF4
        Androgen receptor signaling pathway


    1 Reactome Pathway for RNF4
        Antigen processing: Ubiquitination & Proteasome degradation


    UniProtKB/Swiss-Prot: RNF4_HUMAN, P78317
    Pathway: Protein modification; protein ubiquitination

        Pathway & Disease-focused RT2 Profiler PCR Array including RNF4: 

              Ubiquitin Ligases in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for RNF4

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for RNF4 (P783172, 3 ENSP000003152124) via UniProtKB, MINT, STRING, and/or I2D (see all 83)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SKILP127572, 3MINT-61655 I2D: score=2 
    TRPS1Q9UHF72, 3, ENSP000003790654MINT-19194 MINT-19195 MINT-19193 I2D: score=2 STRING: ENSP00000379065
    NFATC2IPQ8NCF52, 3, ENSP000003247924MINT-6169194 I2D: score=1 STRING: ENSP00000324792
    PARP1P098742, 3, ENSP000003557594MINT-7986354 I2D: score=1 STRING: ENSP00000355759
    ARP102753, ENSP000003638224I2D: score=3 STRING: ENSP00000363822
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 13):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0030521androgen receptor signaling pathway NAS15572661
    GO:0043161proteasome-mediated ubiquitin-dependent protein catabolic process IMP18408734
    GO:0045893positive regulation of transcription, DNA-templated ISS--
    GO:0045944positive regulation of transcription from RNA polymerase II promoter IDA12885770

    Find genes that share ontologies with RNF4           About GenesLikeMe



    (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
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for RNF4

    4 Novoseek inferred chemical compound relationships for RNF4 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    steroid 46.1 12 9710597 (3), 11696545 (2), 10617653 (2), 12885770 (1)
    zinc 39.4 5 11696545 (1), 10617653 (1), 9710597 (1)
    testosterone 37.7 8 10617653 (3), 9710597 (2)
    estrogen 13.3 5 11696545 (3), 14749358 (1)



    Find genes that share compounds with RNF4           About GenesLikeMe



    (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 RNF4 gene (3 alternative transcripts): 
    NM_001185009.2  NM_001185010.2  NM_002938.4  

    Unigene Cluster for RNF4:

    Ring finger protein 4
    Hs.66394  [show with all ESTs]
    Unigene Representative Sequence: AK128038
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 22):
    ENST00000503659 ENST00000504224 ENST00000314289(uc003gfb.3 uc010icj.3 uc003gfc.3)
    ENST00000502316 ENST00000509388 ENST00000507247 ENST00000509258(uc010ici.2)
    ENST00000511843 ENST00000504782 ENST00000513284 ENST00000507784 ENST00000513578
    ENST00000511892 ENST00000511859 ENST00000513643 ENST00000503123 ENST00000509206
    ENST00000506706
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    hsa-miR-3678-3p hsa-miR-607 hsa-miR-106a hsa-miR-146a hsa-miR-200a hsa-miR-25 hsa-miR-3921 hsa-miR-650
    SwitchGear 3'UTR luciferase reporter plasmidRNF4 3' UTR sequence
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      QuantiTect SYBR Green Assays in human, mouse, rat RNF4
      QuantiFast Probe-based Assays in human, mouse, rat RNF4

    Additional mRNA sequence: 

    AB000468.1 AK128038.1 AK307372.1 AK309509.1 AK311314.1 AK312534.1 BC031935.1 U95140.1 

    Selected DOTS entries (see all 25):

    DT.102824075  DT.418598  DT.99971300  DT.91670644  DT.91664071  DT.100793341  DT.40296901  DT.101984117 
    DT.95358974  DT.95358952  DT.121265842  DT.95118554  DT.100793343  DT.121265873  DT.91844988  DT.100793346 
    DT.86843942  DT.91849839  DT.95358946  DT.95358956  DT.121265806  DT.121265809  DT.92063829  DT.99994002 

    Selected AceView cDNA sequences (see all 389):

    BI768010 BE275366 AU143058 Z45626 AU129999 BM918597 BP354232 BE697299 
    AU142773 H61385 D44752 AU131860 BG106449 BE794591 NM_002938 AL044756 
    BP341506 AA341612 BQ930598 BU556496 CD692446 BX462495 AA935847 AU124936 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for RNF4 (see all 6)    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c
    SP1:                                            -                                                               
    SP2:                                            -                                                               
    SP3:                                      -     -     -     -     -     -     -                                 
    SP4:                                                                                                            
    SP5:                                                                                                            


    ECgene alternative splicing isoforms for RNF4

    (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)
    About This Section

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    RNF4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GATATCAGTC
    RNF4 Expression
    About this image

    RNF4 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RNF4 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.66394

    UniProtKB/Swiss-Prot: RNF4_HUMAN, P78317
    Tissue specificity: Widely expressed at low levels in many tissues; highly expressed in testis

        Pathway & Disease-focused RT2 Profiler PCR Array including RNF4: 
              Ubiquitin Ligases in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for RNF4
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    In Situ
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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 RNF4 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rnf41 , 5 ring finger protein 41, 5 88.95(n)1
    91.44(a)1
      5 (17.87 cM)5
    198221  NM_011278.41  NP_035408.11 
     343362895 
    chicken
    (Gallus gallus)
    Aves RNF41 ring finger protein 4 70.37(n)
    70.9(a)
      422886  NM_001012889.1  NP_001012907.1 
    lizard
    (Anolis carolinensis)
    Reptilia RNF46
    ring finger protein 4
    61(a)
    1 ↔ 1
    4(29465949-29466539)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.57942 Xenopus laevis transcribed sequence with weak similarity more 74.41(n)    BX851871.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.173032 Danio rerio, clone IMAGE5914563, mRNA 72.79(n)    BC049485.1 


    ENSEMBL Gene Tree for RNF4 (if available)
    TreeFam Gene Tree for RNF4 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RNF4 gene
    4 SIMAP similar genes for RNF4 using alignment to 11 protein entries:     RNF4_HUMAN (see all proteins):
    PCGF3    RFWD2    RNF166    TRIM5

    Find genes that share paralogs with RNF4           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for RNF4
    PGOHUM00000247103 PGOHUM00000245250


    (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 RNF4 (see all 1089)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1438855871,2
    C--2468920(+) AAAAA-/ATACAA 2 -- us2k10--------
    rs8462451,2
    C,F--2469116(-) ccagTC/Attttt 2 -- us2k1 trp31Minor allele frequency- A:0.50NA 2
    rs1874685381,2
    --2469164(+) AGGCCA/GAGGCG 2 -- us2k10--------
    rs8462441,2
    C,F,H--2469194(-) ggtctC/Tgatct 3 -- us2k17Minor allele frequency- T:0.14NA WA 14
    rs357520011,2
    C--2469243(+) AAAAA-/ATTAGC 3 -- us2k11Minor allele frequency- A:0.00NA 2
    rs1918800901,2
    --2469248(+) AAAAAA/CAAAAA 3 -- us2k10--------
    rs1841757301,2
    --2469329(+) GAACCC/TGGGAT 3 -- us2k10--------
    rs1893427861,2
    --2469361(+) GATCGA/CGCCAC 3 -- us2k10--------
    rs8462431,2
    C,F,A,H--2469383(-) ctgtcT/Gcccag 3 -- us2k17Minor allele frequency- G:0.15NA WA CSA 13
    rs1925665531,2
    --2469444(+) ACTTAG/TATATT 3 -- us2k10--------

    HapMap Linkage Disequilibrium report for RNF4 (2463947 - 2627047 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for RNF4 (see all 11):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2726853CNV Deletion23290073
    esv2823CNV Deletion18987735
    esv2726835CNV Deletion23290073
    nsv290753CNV Loss16902084
    dgv5425n71CNV Loss21882294
    dgv5424n71CNV Loss21882294
    esv25411CNV Loss19812545
    nsv878433CNV Loss21882294
    nsv518472CNV Loss19592680
    nsv878423CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing RNF4
    DNA2.0 Custom Variant and Variant Library Synthesis for RNF4

    (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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    OMIM gene information: 602850    OMIM disorders: --


    Find genes that share disorders with RNF4           About GenesLikeMe

    Genetic Association Database (GAD): RNF4
    Human Genome Epidemiology (HuGE) Navigator: RNF4 (1 document)

    Export disorders for RNF4 gene to outside databases

    (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 RNF4 gene, integrated from 10 sources (see all 69):
    (articles sorted by number of sources associating them with RNF4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification and characterization of a novel RING-finger gene (RNF4) mapping at 4p16.3. (PubMed id 9479498)1, 2, 3 Chiariotti L.... Bruni C.B. (Genomics 1998)
    2. SUMO-1 promotes association of SNURF (RNF4) with PML nuclear bodies. (PubMed id 15707587)1, 2, 9 Haekli M.... Palvimo J.J. (Exp. Cell Res. 2005)
    3. The RING finger protein RNF4, a co-regulator of transcription, interacts with the TRPS1 transcription factor. (PubMed id 12885770)1, 2, 9 Kaiser F.J.... Luedecke H.J. (J. Biol. Chem. 2003)
    4. RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation. (PubMed id 18408734)1, 2, 9 Tatham M.H.... Hay R.T. (Nat. Cell Biol. 2008)
    5. Requirement of PML SUMO interacting motif for RNF4- or arsenic trioxide-induced degradation of nuclear PML isoforms. (PubMed id 23028697)1, 2 Maroui M.A....Chelbi-Alix M.K. (PLoS ONE 2012)
    6. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    7. Arsenic-induced SUMO-dependent recruitment of RNF4 into PML nuclear bodies. (PubMed id 20943951)1, 2 Geoffroy M.C.... Hay R.T. (Mol. Biol. Cell 2010)
    8. 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)
    9. A novel member of the BTB/POZ family, PATZ, associates with the RNF4 RING finger protein and acts as a transcriptional repressor. (PubMed id 10713105)1, 2 Fedele M....Chiatiotti L. (J. Biol. Chem. 2000)
    10. The primary structure and genomic organization of five novel transcripts located close to the Huntington's disease gene on human chromosome 4p16.3. (PubMed id 9734812)1, 2 Hadano S.... Ikeda J.-E. (DNA Res. 1998)

    (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: 6047 HGNC: 10067 AceView: RNF4 Ensembl:ENSG00000063978 euGenes: HUgn6047
    ECgene: RNF4 H-InvDB: RNF4

    (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 RNF4 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for RNF4 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for RNF4 gene:
    Search GeneIP for patents involving RNF4

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



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