Human Gene RNF34 (ENST00000392465.7) from GENCODE V44
  Description: Homo sapiens ring finger protein 34 (RNF34), transcript variant 1, mRNA. (from RefSeq NM_194271)
RefSeq Summary (NM_194271): The protein encoded by this gene contains a RINF finger, a motif known to be involved in protein-protein and protein-DNA interactions. This protein interacts with DNAJA3/hTid-1, which is a DnaJ protein reported to function as a modulator of apoptosis. Overexpression of this gene in Hela cells was shown to confer the resistance to TNF-alpha induced apoptosis, suggesting an anti-apoptotic function of this protein. This protein can be cleaved by caspase-3 during the induction of apoptosis. This protein also targets p53 and phospho-p53 for degradation. Alternatively splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Feb 2012].
Gencode Transcript: ENST00000392465.7
Gencode Gene: ENSG00000170633.17
Transcript (Including UTRs)
   Position: hg38 chr12:121,400,119-121,424,348 Size: 24,230 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg38 chr12:121,402,799-121,423,576 Size: 20,778 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:121,400,119-121,424,348)mRNA (may differ from genome)Protein (373 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGencode
GeneCardsHGNCHPRDLynxMalacardsMGI
neXtProtOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RNF34_HUMAN
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase RNF34; EC=6.3.2.-; AltName: Full=Caspase regulator CARP1; AltName: Full=Caspases-8 and -10-associated RING finger protein 1; Short=CARP-1; AltName: Full=FYVE-RING finger protein Momo; AltName: Full=Human RING finger homologous to inhibitor of apoptosis protein; Short=hRFI; AltName: Full=RING finger protein 34; AltName: Full=RING finger protein RIFF;
FUNCTION: Has E3 ubiquitin-protein ligase activity. Regulates the levels of CASP8 and CASP10 by targeting them for proteasomal degradation. Protects cells against apoptosis induced by TNF. Binds phosphatidylinositol 5-phosphate and phosphatidylinositol 3- phosphate.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with DNAJA3 (Potential). Interacts with CASP8 and CASP10.
SUBCELLULAR LOCATION: Nucleus speckle. Endomembrane system; Peripheral membrane protein.
TISSUE SPECIFICITY: Ubiquitous. Detected in heart, brain, liver, skeletal muscle, kidney, pancreas, spleen, thymus, prostate, testis, ovary, colon and leukocytes.
PTM: Auto-ubiquitinated (in vitro) (By similarity).
PTM: Proteolytically cleaved by caspases upon induction of apoptosis by TNF.
SIMILARITY: Contains 1 FYVE-type zinc finger.
SIMILARITY: Contains 1 RING-type zinc finger.
SIMILARITY: Contains 2 SAP domains.
CAUTION: Was isolated as potential interaction partner of the mitochondrial protein DNAJA3, but the 2 proteins are not in the same cellular compartments.
SEQUENCE CAUTION: Sequence=BAH14169.1; Type=Miscellaneous discrepancy; Note=Intron retention;

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 19.03 RPKM in Testis
Total median expression: 475.01 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -48.00157-0.306 Picture PostScript Text
3' UTR -199.50772-0.258 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011011 - Znf_FYVE_PHD
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD

ModBase Predicted Comparative 3D Structure on Q969K3
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0002039 p53 binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0031625 ubiquitin protein ligase binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
GO:1901981 phosphatidylinositol phosphate binding

Biological Process:
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0006915 apoptotic process
GO:0016567 protein ubiquitination
GO:0035872 nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0070417 cellular response to cold
GO:0070936 protein K48-linked ubiquitination
GO:1901797 negative regulation of signal transduction by p53 class mediator
GO:1902042 negative regulation of extrinsic apoptotic signaling pathway via death domain receptors
GO:2000374 regulation of oxygen metabolic process
GO:2001271 negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0012505 endomembrane system
GO:0016020 membrane
GO:0016604 nuclear body
GO:0016607 nuclear speck


-  Descriptions from all associated GenBank mRNAs
  AF306709 - Homo sapiens RING finger protein RIFF mRNA, complete cds.
AK225285 - Homo sapiens mRNA for ring finger protein 34 isoform 2 variant, clone: HEP00326.
AK025439 - Homo sapiens cDNA: FLJ21786 fis, clone HEP00326.
AK304366 - Homo sapiens cDNA FLJ52837 complete cds, highly similar to RING finger protein 34.
JD473182 - Sequence 454206 from Patent EP1572962.
JD078736 - Sequence 59760 from Patent EP1572962.
JD200619 - Sequence 181643 from Patent EP1572962.
BC039029 - Homo sapiens ring finger protein 34, mRNA (cDNA clone IMAGE:5176937), with apparent retained intron.
BC046174 - Homo sapiens ring finger protein 34, mRNA (cDNA clone IMAGE:4394489), partial cds.
BC007826 - Homo sapiens ring finger protein 34, mRNA (cDNA clone MGC:14144 IMAGE:3347885), complete cds.
CU675815 - Synthetic construct Homo sapiens gateway clone IMAGE:100019124 5' read RNF34 mRNA.
CR457342 - Homo sapiens full open reading frame cDNA clone RZPDo834F0713D for gene RNF34, ring finger protein 34; complete cds, incl. stopcodon.
AY098934 - Homo sapiens FYVE-RING finger protein MOMO mRNA, partial cds.
BT007283 - Homo sapiens ring finger protein 34 mRNA, complete cds.
AB084914 - Homo sapiens hRFI mRNA for hypothetical protein, complete cds.
KJ894793 - Synthetic construct Homo sapiens clone ccsbBroadEn_04187 RNF34 gene, encodes complete protein.
AK130355 - Homo sapiens cDNA FLJ26845 fis, clone PRS07831.
AK096994 - Homo sapiens cDNA FLJ39675 fis, clone SMINT2009529.
AK024957 - Homo sapiens cDNA: FLJ21304 fis, clone COL02111.
JD513324 - Sequence 494348 from Patent EP1572962.
JD316637 - Sequence 297661 from Patent EP1572962.
JD348735 - Sequence 329759 from Patent EP1572962.
JD463462 - Sequence 444486 from Patent EP1572962.
JD461421 - Sequence 442445 from Patent EP1572962.
JD137069 - Sequence 118093 from Patent EP1572962.
JD245198 - Sequence 226222 from Patent EP1572962.
JD477632 - Sequence 458656 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q969K3 (Reactome details) participates in the following event(s):

R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-6804441 RNF34 or RFFL ubiquitinates phosphorylated TP53
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-6804757 Regulation of TP53 Degradation
R-HSA-1280218 Adaptive Immune System
R-HSA-6806003 Regulation of TP53 Expression and Degradation
R-HSA-168256 Immune System
R-HSA-5633007 Regulation of TP53 Activity
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B7Z933, ENST00000392465.1, ENST00000392465.2, ENST00000392465.3, ENST00000392465.4, ENST00000392465.5, ENST00000392465.6, NM_194271, Q8NG47, Q969K3, Q9H6W8, RNF34_HUMAN, uc001uak.1, uc001uak.2, uc001uak.3
UCSC ID: ENST00000392465.7
RefSeq Accession: NM_194271
Protein: Q969K3 (aka RNF34_HUMAN)
CCDS: CCDS9221.1, CCDS31915.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.