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

Gene ID: 681578, updated on 10-Oct-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
EnsemblRapid: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 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 transferase activity 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 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
    ENSRNOP00000105152.1, ENSRNOT00000152895.1
    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

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

  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, ENSRNOT00000118325.2
    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, ENSRNOT00000113295.2
    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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