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Rnf138 ring finger protein 138 [ Rattus norvegicus (Norway rat) ]

Gene ID: 94196, updated on 2-May-2024

Summary

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Official Symbol
Rnf138provided by RGD
Official Full Name
ring finger protein 138provided by RGD
Primary source
RGD:621485
See related
Ensembl:ENSRNOG00000015645 AllianceGenome:RGD:621485
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
Also known as
Rsd4; Trif
Summary
Predicted to enable protein kinase binding activity; single-stranded DNA binding activity; and ubiquitin protein ligase activity. Predicted to be involved in DNA double-strand break processing involved in repair via single-strand annealing; double-strand break repair via homologous recombination; and protein ubiquitination. Predicted to act upstream of or within cellular response to leukemia inhibitory factor. Predicted to be active in site of double-strand break. Orthologous to human RNF138 (ring finger protein 138). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 257.8), Thymus (RPKM 86.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
18p12
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (12558430..12590849)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (12291557..12315931)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (15146925..15167361, complement)

Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene elongation factor 2-like Neighboring gene eukaryotic translation elongation factor 2, pseudogene 4 Neighboring gene ring finger protein 125 Neighboring gene meprin A subunit beta Neighboring gene GRB2 associated regulator of MAPK1 subtype 1 Neighboring gene uncharacterized LOC120098265

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. Ethanol extracts from Ilex pubescens promotes cerebral ischemic tolerance via modulation of TLR4-MyD88/TRIF signaling pathway in rats. Fang X, et al. J Ethnopharmacol, 2020 Jun 28. PMID 32084554
  2. The RNF138 E3 ligase displaces Ku to promote DNA end resection and regulate DNA repair pathway choice. Ismail IH, et al. Nat Cell Biol, 2015 Nov. PMID 26502055
  3. Ubiquitin Ligase RNF138 Promotes Episodic Ataxia Type 2-Associated Aberrant Degradation of Human Ca(v)2.1 (P/Q-Type) Calcium Channels. Fu SJ, et al. J Neurosci, 2017 Mar 1. PMID 28167673, Free PMC Article
  4. Systematic E2 screening reveals a UBE2D-RNF138-CtIP axis promoting DNA repair. Schmidt CK, et al. Nat Cell Biol, 2015 Nov. PMID 26502057, Free PMC Article
  5. NARF, an nemo-like kinase (NLK)-associated ring finger protein regulates the ubiquitylation and degradation of T cell factor/lymphoid enhancer factor (TCF/LEF). Yamada M, et al. J Biol Chem, 2006 Jul 28. PMID 16714285

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Ethanol extracts from Ilex pubescens promotes cerebral ischemic tolerance via modulation of TLR4-MyD88/TRIF signaling pathway in rats.
    Title: Ethanol extracts from Ilex pubescens promotes cerebral ischemic tolerance via modulation of TLR4-MyD88/TRIF signaling pathway in rats.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC72355

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein kinase binding ISO
Inferred from Sequence Orthology
more info
  
enables single-stranded DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables single-stranded DNA binding ISS
Inferred from Sequence or Structural Similarity
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 ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in DNA double-strand break processing involved in repair via single-strand annealing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in DNA double-strand break processing involved in repair via single-strand annealing ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA double-strand break processing involved in repair via single-strand annealing ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to leukemia inhibitory factor IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within cellular response to leukemia inhibitory factor ISO
Inferred from Sequence Orthology
more info
  
involved_in double-strand break repair via homologous recombination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
involved_in double-strand break repair via homologous recombination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in postsynapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in presynapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in site of double-strand break IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in site of double-strand break ISO
Inferred from Sequence Orthology
more info
  
located_in site of double-strand break ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase RNF138
Names
RING-type E3 ubiquitin transferase RNF138
RSD-4
ring finger protein 138, E3 ubiquitin protein ligase
NP_446040.1
XP_038953128.1
XP_038953129.1

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_053588.3 → NP_446040.1  E3 ubiquitin-protein ligase RNF138

    See identical proteins and their annotated locations for NP_446040.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000018
    UniProtKB/Swiss-Prot
    Q99PD2
    UniProtKB/TrEMBL
    A6J2H0, A6J2H1
    Related
    ENSRNOP00000084639.1, ENSRNOT00000102423.1
    Conserved Domains (3) summary
    cd00162
    Location:18 → 57
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    pfam18574
    Location:80 → 112
    zf_C2HC_14; C2HC Zing finger domain
    cl17238
    Location:14 → 59
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

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_086036.1 Reference GRCr8

    Range
    12558430..12590849
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039097200.2 → XP_038953128.1  E3 ubiquitin-protein ligase RNF138 isoform X1

    UniProtKB/TrEMBL
    A0A8I6ABB7, A6J2G9
    Related
    ENSRNOP00000091039.1
    Conserved Domains (3) summary
    cd16544
    Location:14 → 59
    RING-HC_RNF138; RING finger, HC subclass, found in RING finger protein 138 (RNF138) and similar proteins
    pfam05605
    Location:156 → 215
    zf-Di19; Drought induced 19 protein (Di19), zinc-binding
    pfam18574
    Location:80 → 112
    zf_C2HC_14; C2HC Zing finger domain

  2. XM_039097201.2 → XP_038953129.1  E3 ubiquitin-protein ligase RNF138 isoform X2

    UniProtKB/Swiss-Prot
    Q99PD2
    UniProtKB/TrEMBL
    A6J2H0, A6J2H1
    Conserved Domains (3) summary
    cd00162
    Location:18 → 57
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    pfam18574
    Location:80 → 112
    zf_C2HC_14; C2HC Zing finger domain
    cl17238
    Location:14 → 59
    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
Q99PD2.1 GenPept UniProtKB/Swiss-Prot:Q99PD2

Gene LinkOut

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