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    Rnf13 ring finger protein 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 681578, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Rnf13provided by RGD
    Official Full Name
    ring finger protein 13provided by RGD
    Primary source
    RGD:1594062
    See related
    Ensembl:ENSRNOG00000029209 AllianceGenome:RGD:1594062
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable JUN kinase binding activity and ubiquitin protein ligase activity. Predicted to be involved in positive regulation of stress-activated protein kinase signaling cascade; protein autoubiquitination; and ubiquitin-dependent protein catabolic process. Predicted to be located in several cellular components, including endoplasmic reticulum; late endosome membrane; and nucleoplasm. Predicted to be active in lysosomal membrane. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 73. Orthologous to human RNF13 (ring finger protein 13). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Liver (RPKM 482.8), Kidney (RPKM 420.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf13 in Genome Data Viewer
    Location:
    2q26
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (144076526..144211520)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (141927887..142061801)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (147853423..147948277)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L12, pseudogene 2 Neighboring gene uncharacterized LOC108350015 Neighboring gene ribosomal protein L36A, pseudogene 1 Neighboring gene ankyrin repeat and ubiquitin domain containing 1 Neighboring gene transfer RNA proline (anticodon AGG) 40 Neighboring gene 60S ribosomal protein L34 pseudogene Neighboring gene uncharacterized LOC120100826 Neighboring gene non-POU domain containing, octamer-binding, pseudogene 2 Neighboring gene profilin 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. RNF13, a RING finger protein, mediates endoplasmic reticulum stress-induced apoptosis through the inositol-requiring enzyme (IRE1α)/c-Jun NH2-terminal kinase pathway. Arshad M, et al. J Biol Chem, 2013 Mar 22. PMID 23378536, Free PMC Article
    2. The PA-TM-RING protein RING finger protein 13 is an endosomal integral membrane E3 ubiquitin ligase whose RING finger domain is released to the cytoplasm by proteolysis. Bocock JP, et al. FEBS J, 2009 Apr. PMID 19292867
    3. Phosphorylation and degradation of tomosyn-2 de-represses insulin secretion. Bhatnagar S, et al. J Biol Chem, 2014 Sep 5. PMID 25002582, Free PMC Article
    4. Integral and associated lysosomal membrane proteins. Schröder B, et al. Traffic, 2007 Dec. PMID 17897319
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables JUN kinase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables JUN kinase binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-protein transferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in organelle localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of JNK cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of JNK cascade ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein autoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein autoubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endomembrane system IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in lysosomal membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in lysosomal membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in lysosomal membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear inner membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF13
    Names
    RING-type E3 ubiquitin transferase RNF13
    NP_001102914.1
    XP_038959052.1
    XP_038959053.1
    XP_063138605.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001109444.2 → NP_001102914.1  E3 ubiquitin-protein ligase RNF13 precursor

      See identical proteins and their annotated locations for NP_001102914.1

      Status: PROVISIONAL

      Source sequence(s)
      BC081881
      UniProtKB/Swiss-Prot
      Q66HG0
      UniProtKB/TrEMBL
      A6JVH0, A6JVH3
      Related
      ENSRNOP00000060441.3, ENSRNOT00000068606.3
      Conserved Domains (2) summary
      cd02123
      Location:23 → 180
      PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
      cd16797
      Location:238 → 283
      RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086020.1 Reference GRCr8

      Range
      144076526..144211520
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282535.1 → XP_063138605.1  E3 ubiquitin-protein ligase RNF13 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZLW1, A6JVH3

    2. XM_039103124.2 → XP_038959052.1  E3 ubiquitin-protein ligase RNF13 isoform X1

      UniProtKB/Swiss-Prot
      Q66HG0
      UniProtKB/TrEMBL
      A6JVH0, A6JVH3
      Related
      ENSRNOP00000093374.1
      Conserved Domains (2) summary
      cd02123
      Location:23 → 180
      PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
      cd16797
      Location:238 → 283
      RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins

    3. XM_039103125.2 → XP_038959053.1  E3 ubiquitin-protein ligase RNF13 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZLW1, A6JVH3
      Related
      ENSRNOP00000078956.1
      Conserved Domains (3) summary
      cd02123
      Location:23 → 141
      PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
      cd00162
      Location:213 → 254
      RING_Ubox; RING-H2 finger (C3H2C3-type) [structural motif]
      cl17238
      Location:211 → 256
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q66HG0.1 GenPept UniProtKB/Swiss-Prot:Q66HG0

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