Details for: RNF4

Gene ID: 6047

Symbol: RNF4

Ensembl ID: ENSG00000063978

Description: ring finger protein 4

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: polychromatophilic erythroblast (CL0000550)
    Fold Change: 189.0126
    Cell Significance Index: -29.4000
  • Cell Name: hematopoietic oligopotent progenitor cell (CL0002032)
    Fold Change: 117.0541
    Cell Significance Index: -29.6900
  • Cell Name: mucosal type mast cell (CL0000485)
    Fold Change: 70.7188
    Cell Significance Index: -28.7300
  • Cell Name: smooth muscle fiber of ileum (CL1000278)
    Fold Change: 69.9183
    Cell Significance Index: -33.0100
  • Cell Name: peripheral blood mononuclear cell (CL2000001)
    Fold Change: 62.2102
    Cell Significance Index: -32.0000
  • Cell Name: ciliated cell of the bronchus (CL0002332)
    Fold Change: 30.4899
    Cell Significance Index: -29.1100
  • Cell Name: orthochromatic erythroblast (CL0000552)
    Fold Change: 25.5078
    Cell Significance Index: -31.4500
  • Cell Name: CD8-alpha-beta-positive, alpha-beta intraepithelial T cell (CL0000796)
    Fold Change: 10.3626
    Cell Significance Index: -27.7600
  • Cell Name: CD8-positive, alpha-beta regulatory T cell (CL0000795)
    Fold Change: 8.3934
    Cell Significance Index: -25.7800
  • Cell Name: stromal cell of bone marrow (CL0010001)
    Fold Change: 8.0942
    Cell Significance Index: -31.9400
  • Cell Name: epidermal Langerhans cell (CL0002457)
    Fold Change: 7.2238
    Cell Significance Index: -15.8100
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: 1.3927
    Cell Significance Index: 38.9200
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: 1.1229
    Cell Significance Index: 15.3200
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: 1.0683
    Cell Significance Index: 28.6300
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: 1.0321
    Cell Significance Index: 204.8200
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.9898
    Cell Significance Index: 107.6700
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.8928
    Cell Significance Index: 145.2100
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: 0.8780
    Cell Significance Index: 176.1200
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 0.5848
    Cell Significance Index: 57.8500
  • Cell Name: Purkinje cell (CL0000121)
    Fold Change: 0.5654
    Cell Significance Index: 12.3800
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: 0.5279
    Cell Significance Index: 64.9100
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 0.5142
    Cell Significance Index: 14.8200
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: 0.5069
    Cell Significance Index: 38.9000
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 0.4968
    Cell Significance Index: 89.5500
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: 0.4927
    Cell Significance Index: 176.7100
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.4581
    Cell Significance Index: 31.6800
  • Cell Name: tonsil germinal center B cell (CL2000006)
    Fold Change: 0.4358
    Cell Significance Index: 51.3900
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 0.3967
    Cell Significance Index: 17.9800
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: 0.3477
    Cell Significance Index: 19.5100
  • Cell Name: GABAergic interneuron (CL0011005)
    Fold Change: 0.3439
    Cell Significance Index: 237.8800
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: 0.2989
    Cell Significance Index: 41.0500
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: 0.2722
    Cell Significance Index: 7.4100
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: 0.2669
    Cell Significance Index: 145.7600
  • Cell Name: lung endothelial cell (CL1001567)
    Fold Change: 0.2525
    Cell Significance Index: 13.1500
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 0.2455
    Cell Significance Index: 221.6600
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: 0.2306
    Cell Significance Index: 14.8800
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: 0.2270
    Cell Significance Index: 11.7900
  • Cell Name: hair follicular keratinocyte (CL2000092)
    Fold Change: 0.2011
    Cell Significance Index: 88.9200
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: 0.1642
    Cell Significance Index: 7.7200
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.1495
    Cell Significance Index: 28.4600
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: 0.1123
    Cell Significance Index: 19.1800
  • Cell Name: skeletal muscle fibroblast (CL0011027)
    Fold Change: 0.1092
    Cell Significance Index: 0.7400
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: 0.0859
    Cell Significance Index: 6.4000
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: 0.0722
    Cell Significance Index: 135.8800
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: 0.0706
    Cell Significance Index: 3.2900
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: 0.0434
    Cell Significance Index: 80.0700
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: 0.0415
    Cell Significance Index: 63.8900
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.0327
    Cell Significance Index: 1.1500
  • Cell Name: eye photoreceptor cell (CL0000287)
    Fold Change: 0.0235
    Cell Significance Index: 1.4800
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: 0.0160
    Cell Significance Index: 21.8000
  • Cell Name: lactocyte (CL0002325)
    Fold Change: 0.0098
    Cell Significance Index: 1.2700
  • Cell Name: odontoblast (CL0000060)
    Fold Change: 0.0085
    Cell Significance Index: 1.0900
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: 0.0071
    Cell Significance Index: 0.1900
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: 0.0059
    Cell Significance Index: 3.7500
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0075
    Cell Significance Index: -3.3900
  • Cell Name: cardiac endothelial cell (CL0010008)
    Fold Change: -0.0122
    Cell Significance Index: -0.1800
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0210
    Cell Significance Index: -15.3700
  • Cell Name: sebum secreting cell (CL0000317)
    Fold Change: -0.0215
    Cell Significance Index: -1.5200
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: -0.0223
    Cell Significance Index: -0.6400
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: -0.0265
    Cell Significance Index: -1.6300
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0282
    Cell Significance Index: -21.3600
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.0340
    Cell Significance Index: -1.5100
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0353
    Cell Significance Index: -26.1600
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0449
    Cell Significance Index: -6.5200
  • Cell Name: cerebellar granule cell (CL0001031)
    Fold Change: -0.0473
    Cell Significance Index: -0.8100
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0495
    Cell Significance Index: -27.9100
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0544
    Cell Significance Index: -5.5600
  • Cell Name: pancreatic PP cell (CL0002275)
    Fold Change: -0.0577
    Cell Significance Index: -36.0400
  • Cell Name: CD4-positive, alpha-beta memory T cell, CD45RO-positive (CL0001204)
    Fold Change: -0.0615
    Cell Significance Index: -1.8100
  • Cell Name: direct pathway medium spiny neuron (CL4023026)
    Fold Change: -0.0837
    Cell Significance Index: -3.1700
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.0843
    Cell Significance Index: -5.6700
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0887
    Cell Significance Index: -25.5200
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: -0.1114
    Cell Significance Index: -12.9800
  • Cell Name: leptomeningeal cell (CL0000708)
    Fold Change: -0.1172
    Cell Significance Index: -2.5100
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.1536
    Cell Significance Index: -17.6000
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.1593
    Cell Significance Index: -4.1900
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.1664
    Cell Significance Index: -35.0500
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: -0.1669
    Cell Significance Index: -4.2900
  • Cell Name: OFF midget ganglion cell (CL4033047)
    Fold Change: -0.1836
    Cell Significance Index: -2.2900
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: -0.2157
    Cell Significance Index: -6.9100
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.2485
    Cell Significance Index: -25.8700
  • Cell Name: preadipocyte (CL0002334)
    Fold Change: -0.2680
    Cell Significance Index: -5.2300
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: -0.2755
    Cell Significance Index: -3.9500
  • Cell Name: glycinergic neuron (CL1001509)
    Fold Change: -0.2844
    Cell Significance Index: -14.9300
  • Cell Name: centrilobular region hepatocyte (CL0019029)
    Fold Change: -0.2897
    Cell Significance Index: -4.8800
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: -0.2938
    Cell Significance Index: -7.8600
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: -0.3116
    Cell Significance Index: -5.2200
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.3471
    Cell Significance Index: -27.4900
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: -0.3753
    Cell Significance Index: -13.0400
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.4391
    Cell Significance Index: -26.9200
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: -0.4433
    Cell Significance Index: -9.2800
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: -0.4483
    Cell Significance Index: -9.7100
  • Cell Name: periportal region hepatocyte (CL0019026)
    Fold Change: -0.4648
    Cell Significance Index: -6.8600
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.4719
    Cell Significance Index: -13.9000
  • Cell Name: endothelial cell of placenta (CL0009092)
    Fold Change: -0.5040
    Cell Significance Index: -3.0400
  • Cell Name: hippocampal pyramidal neuron (CL1001571)
    Fold Change: -0.5242
    Cell Significance Index: -14.9600
  • Cell Name: Hofbauer cell (CL3000001)
    Fold Change: -0.5433
    Cell Significance Index: -4.4300
  • Cell Name: cardiac muscle cell (CL0000746)
    Fold Change: -0.5520
    Cell Significance Index: -8.1500
  • Cell Name: pro-T cell (CL0000827)
    Fold Change: -0.5625
    Cell Significance Index: -14.3700
  • Cell Name: umbrella cell of urothelium (CL4030056)
    Fold Change: -0.5674
    Cell Significance Index: -5.2300

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics** RNF4 is a 132-kDa protein that belongs to the RING finger protein family, which is characterized by its ability to interact with ubiquitin-like proteins. RNF4 has a highly conserved RING finger domain, which is essential for its ubiquitin ligase activity. The protein is highly expressed in various cell types, including germ cells, dopaminergic neurons, and immune cells such as mononuclear cells and endothelial cells. RNF4 has been shown to interact with various proteins, including transcription factors, kinases, and other RING finger proteins, which highlights its complex role in regulating cellular processes. **Pathways and Functions** RNF4 is involved in several key pathways, including: 1. **Adaptive Immune System**: RNF4 plays a crucial role in the regulation of antigen presentation and the processing of antigens for presentation to T cells. It interacts with MHC class I molecules and other proteins involved in antigen processing, ensuring the proper presentation of antigens to T cells. 2. **Antigen Processing: Ubiquitination & Proteasome Degradation**: RNF4 mediates the ubiquitination of proteins involved in antigen processing, including MHC class I molecules and other proteins involved in the proteasome pathway. This process ensures the degradation of antigens and their presentation to T cells. 3. **DNA Repair**: RNF4 is involved in the regulation of DNA repair pathways, including homologous recombination and non-homologous end joining. It interacts with proteins involved in DNA damage response, including ATM and ATR kinases, ensuring the proper repair of DNA double-strand breaks. 4. **Transcription Regulation**: RNF4 has been shown to interact with transcription factors, including NF-κB and p53, which highlights its role in regulating gene expression in response to various cellular stresses. **Clinical Significance** RNF4 has been implicated in several diseases, including: 1. **Cancer**: RNF4 has been shown to be overexpressed in various types of cancer, including breast, lung, and colon cancer. Its overexpression is associated with poor prognosis and increased tumor aggressiveness. 2. **Autoimmune Diseases**: RNF4 has been implicated in autoimmune diseases, including rheumatoid arthritis and lupus. Its dysregulation is associated with immune system dysfunction and tissue damage. 3. **Neurological Disorders**: RNF4 has been shown to be involved in neurological disorders, including Parkinson's disease and Alzheimer's disease. Its dysregulation is associated with neuronal dysfunction and degeneration. In conclusion, RNF4 is a critical protein involved in various cellular processes, including immune system regulation, antigen processing, and DNA repair. Its dysregulation has been implicated in several diseases, highlighting its importance as a therapeutic target. Further studies are needed to fully understand the role of RNF4 in human disease and to develop effective therapeutic strategies.

Genular Protein ID: 1144589318

Symbol: RNF4_HUMAN

Name: N/A

UniProtKB Accession Codes:

P78317 B2R6D6 D6RF58 Q49AR8

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 BMRB 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 2 CDD 1 CTD 1 ChEBI 8 ChEMBL 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EC 1 EMBL 11 Ensembl 5 EvolutionaryTrace 1 ExpressionAtlas 1 GO 26 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PDB 3 PDBsum 3 PRO 1 PROSITE 2 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 Pumba 1 RNAct 1 Reactome 2 RefSeq 3 SIGNOR 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 UniPathway 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 9734812

Title: 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

DOI: 10.1093/dnares/5.3.177

PubMed ID: 9479498

Title: Identification and characterization of a novel RING-finger gene (RNF4) mapping at 4p16.3.

PubMed ID: 9479498

DOI: 10.1006/geno.1997.5105

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15815621

Title: Generation and annotation of the DNA sequences of human chromosomes 2 and 4.

PubMed ID: 15815621

DOI: 10.1038/nature03466

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 10713105

Title: 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

DOI: 10.1074/jbc.275.11.7894

PubMed ID: 12885770

Title: The RING finger protein RNF4, a co-regulator of transcription, interacts with the TRPS1 transcription factor.

PubMed ID: 12885770

DOI: 10.1074/jbc.m306259200

PubMed ID: 15707587

Title: SUMO-1 promotes association of SNURF (RNF4) with PML nuclear bodies.

PubMed ID: 15707587

DOI: 10.1016/j.yexcr.2004.10.029

PubMed ID: 18408734

Title: RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation.

PubMed ID: 18408734

DOI: 10.1038/ncb1716

PubMed ID: 18669648

Title: A quantitative atlas of mitotic phosphorylation.

PubMed ID: 18669648

DOI: 10.1073/pnas.0805139105

PubMed ID: 19779455

Title: PARP-1 transcriptional activity is regulated by sumoylation upon heat shock.

PubMed ID: 19779455

DOI: 10.1038/emboj.2009.279

PubMed ID: 19307308

Title: Extracellular signal-regulated kinase mitogen-activated protein kinase signaling initiates a dynamic interplay between sumoylation and ubiquitination to regulate the activity of the transcriptional activator PEA3.

PubMed ID: 19307308

DOI: 10.1128/mcb.01128-08

PubMed ID: 19690332

Title: Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions.

PubMed ID: 19690332

DOI: 10.1126/scisignal.2000007

PubMed ID: 20212317

Title: The SUMO protease SENP6 is essential for inner kinetochore assembly.

PubMed ID: 20212317

DOI: 10.1083/jcb.200909008

PubMed ID: 20943951

Title: Arsenic-induced SUMO-dependent recruitment of RNF4 into PML nuclear bodies.

PubMed ID: 20943951

DOI: 10.1091/mbc.e10-05-0449

PubMed ID: 20026589

Title: RNF4 and VHL regulate the proteasomal degradation of SUMO-conjugated Hypoxia-Inducible Factor-2alpha.

PubMed ID: 20026589

DOI: 10.1093/nar/gkp1157

PubMed ID: 23028697

Title: Requirement of PML SUMO interacting motif for RNF4- or arsenic trioxide-induced degradation of nuclear PML isoforms.

PubMed ID: 23028697

DOI: 10.1371/journal.pone.0044949

PubMed ID: 28842558

Title: HSP70-Hrd1 axis precludes the oncorepressor potential of N-terminal misfolded Blimp-1s in lymphoma cells.

PubMed ID: 28842558

DOI: 10.1038/s41467-017-00476-w

PubMed ID: 35013556

Title: The ubiquitin-dependent ATPase p97 removes cytotoxic trapped PARP1 from chromatin.

PubMed ID: 35013556

DOI: 10.1038/s41556-021-00807-6

Sequence Information:

  • Length: 190
  • Mass: 21319
  • Checksum: E5E3AE4A9B28CF9D
  • Sequence:
    • MSTRKRRGGA INSRQAQKRT REATSTPEIS LEAEPIELVE TAGDEIVDLT CESLEPVVVD 
LTHNDSVVIV DERRRPRRNA RRLPQDHADS CVVSSDDEEL SRDRDVYVTT HTPRNARDEG 
ATGLRPSGTV SCPICMDGYS EIVQNGRLIV STECGHVFCS QCLRDSLKNA NTCPTCRKKI 
NHKRYHPIYI

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.