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    Rnf138 ring finger protein 138 [ Mus musculus (house mouse) ]

    Gene ID: 56515, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rnf138provided by MGI
    Official Full Name
    ring finger protein 138provided by MGI
    Primary source
    MGI:MGI:1929211
    See related
    Ensembl:ENSMUSG00000024317 AllianceGenome:MGI:1929211
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Trif; STRIN; Trif-d; 2410015A17Rik; 2810480D20Rik
    Summary
    Predicted to enable protein kinase binding activity; single-stranded DNA binding activity; and ubiquitin protein ligase activity. Acts upstream of or within cellular response to leukemia inhibitory factor. Predicted to be active in site of double-strand break. Is expressed in several structures, including genitourinary system; lung; nervous system; sensory organ; and tooth. Orthologous to human RNF138 (ring finger protein 138). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in testis adult (RPKM 61.8), CNS E18 (RPKM 6.3) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rnf138 in Genome Data Viewer
    Location:
    18 A2; 18 11.73 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (21134202..21161281)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (21001245..21028224)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene trafficking protein particle complex 8 Neighboring gene STARR-positive B cell enhancer ABC_E11655 Neighboring gene STARR-seq mESC enhancer starr_43995 Neighboring gene STARR-seq mESC enhancer starr_43996 Neighboring gene CapStarr-seq enhancer MGSCv37_chr18:21115655-21115838 Neighboring gene STARR-seq mESC enhancer starr_43997 Neighboring gene ring finger protein 125 Neighboring gene STARR-positive B cell enhancer ABC_E3224 Neighboring gene STARR-seq mESC enhancer starr_43999 Neighboring gene STARR-seq mESC enhancer starr_44001 Neighboring gene STARR-seq mESC enhancer starr_44006 Neighboring gene STARR-seq mESC enhancer starr_44007 Neighboring gene ribosomal protein L27A pseudogene Neighboring gene meprin 1 beta Neighboring gene GRB2 associated regulator of MAPK1 subtype 1 Neighboring gene STARR-seq mESC enhancer starr_44011

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Rnf138 deficiency promotes apoptosis of spermatogonia in juvenile male mice. Xu L, et al. Cell Death Dis, 2017 May 18. PMID 28518149, Free PMC Article
    2. E3 ubiquitin-ligase RNF138 may regulate p53 protein expression to regulate the self-renewal and tumorigenicity of glioma stem cells. Chao Q, et al. J Cancer Res Ther, 2023 Dec 1. PMID 38156932
    3. RING finger 138 deregulation distorts NF-кB signaling and facilities colitis switch to aggressive malignancy. Lu Y, et al. Signal Transduct Target Ther, 2022 Jun 13. PMID 35697692, Free PMC Article
    4. RNF138 interacts with RAD51D and is required for DNA interstrand crosslink repair and maintaining chromosome integrity. Yard BD, et al. DNA Repair (Amst), 2016 Jun. PMID 27161866, Free PMC Article
    5. RNF138 inhibits late inflammatory gene transcription through degradation of SMARCC1 of the SWI/SNF complex. Liu W, et al. Cell Rep, 2023 Feb 28. PMID 36800290

    See all (33) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. E3 ubiquitin-ligase RNF138 may regulate p53 protein expression to regulate the self-renewal and tumorigenicity of glioma stem cells.
      Title: E3 ubiquitin-ligase RNF138 may regulate p53 protein expression to regulate the self-renewal and tumorigenicity of glioma stem cells.
    2. RING finger 138 deregulation distorts NF-small ka, CyrillicB signaling and facilities colitis switch to aggressive malignancy.
      Title: RING finger 138 deregulation distorts NF-кB signaling and facilities colitis switch to aggressive malignancy.
    3. Rnf138 deficiency promotes the apoptosis of spermatogenic cells.
      Title: Rnf138 deficiency promotes apoptosis of spermatogonia in juvenile male mice.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    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 MGI

    Function Evidence Code Pubs
    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 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 Wnt signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    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
    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
    NP_001289934.1
    NP_001289940.1
    NP_062680.2
    NP_997506.1
    XP_006526180.1
    XP_006526181.1
    XP_006526182.1
    XP_011245277.1

    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_001303005.1 → NP_001289934.1  E3 ubiquitin-protein ligase RNF138 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the 5' coding region and lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. These differences cause translation initiation at an alternate downstream start codon and result in an isoform (3) that is shorter and has a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AC138611, AK013419, AK020748, AK136138, BB673818
      UniProtKB/Swiss-Prot
      Q9CQE0
      UniProtKB/TrEMBL
      Q9CSA3

    2. NM_001303011.1 → NP_001289940.1  E3 ubiquitin-protein ligase RNF138 isoform 4

      See identical proteins and their annotated locations for NP_001289940.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks two alternate in-frame exons in the 3' coding region, compared to variant 1. The resulting protein (isoform 4) is shorter than isoform 1.
      Source sequence(s)
      AC138611, AK004238, AK013419, AK020748, AK136138, BB673818
      UniProtKB/TrEMBL
      A0A3Q4EHU1
      Related
      ENSMUSP00000157123.2, ENSMUST00000234545.2
      Conserved Domains (2) summary
      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

    3. NM_019706.3 → NP_062680.2  E3 ubiquitin-protein ligase RNF138 isoform 2

      See identical proteins and their annotated locations for NP_062680.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. The resulting protein (isoform 2) is shorter than isoform 1.
      Source sequence(s)
      AC138611, AK013419, AK020748, AK136138, BB673818
      Consensus CDS
      CCDS29089.1
      UniProtKB/TrEMBL
      A0A3Q4EHU1
      Related
      ENSMUSP00000072626.6, ENSMUST00000072847.12
      Conserved Domains (2) summary
      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

    4. NM_207623.2 → NP_997506.1  E3 ubiquitin-protein ligase RNF138 isoform 1

      See identical proteins and their annotated locations for NP_997506.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC138611, AK004238, AK013419, AK020748, AK136138, BB673818
      Consensus CDS
      CCDS29090.1
      UniProtKB/Swiss-Prot
      Q9CQE0, Q9WTR9, Q9WTS0
      Related
      ENSMUSP00000157047.2, ENSMUST00000234536.2
      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

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000084.7 Reference GRCm39 C57BL/6J

      Range
      21134202..21161281
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011246975.4 → XP_011245277.1  E3 ubiquitin-protein ligase RNF138 isoform X1

      See identical proteins and their annotated locations for XP_011245277.1

      UniProtKB/Swiss-Prot
      Q9CQE0, Q9WTR9, Q9WTS0
      Related
      ENSMUSP00000157102.2, ENSMUST00000234107.2
      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_006526117.5 → XP_006526180.1  E3 ubiquitin-protein ligase RNF138 isoform X2

      Conserved Domains (4) summary
      cd00162
      Location:18 → 57
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam05605
      Location:137 → 196
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding
      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

    3. XM_006526118.5 → XP_006526181.1  E3 ubiquitin-protein ligase RNF138 isoform X3

      See identical proteins and their annotated locations for XP_006526181.1

      UniProtKB/TrEMBL
      A0A3Q4EHU1
      Conserved Domains (2) summary
      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

    4. XM_006526119.5 → XP_006526182.1  E3 ubiquitin-protein ligase RNF138 isoform X4

      Conserved Domains (2) summary
      pfam05605
      Location:43 → 102
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding
      cl17238
      Location:14 → 37
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    RNA

    1. XR_004939875.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CQE0.1 GenPept UniProtKB/Swiss-Prot:Q9CQE0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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