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    Rnf38 ring finger protein 38 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171501, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rnf38provided by RGD
    Official Full Name
    ring finger protein 38provided by RGD
    Primary source
    RGD:621856
    See related
    EnsemblRapid:ENSRNOG00000013956 AllianceGenome:RGD:621856
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Oip1
    Summary
    Predicted to enable ubiquitin protein ligase activity. Involved in male gonad development. Located in sperm flagellum. Orthologous to human RNF38 (ring finger protein 38). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 94.0), Testes (RPKM 71.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf38 in Genome Data Viewer
    Location:
    5q22
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (63154507..63263138, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (58358771..58467424, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (59604783..59713108, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase Neighboring gene small ribosomal subunit protein eS12-like Neighboring gene maternal embryonic leucine zipper kinase Neighboring gene small nucleolar RNA SNORA17

    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. RNF38 encodes a nuclear ubiquitin protein ligase that modifies p53. Sheren JE, et al. Biochem Biophys Res Commun, 2013 Nov 1. PMID 23973461, Free PMC Article
    2. Novel RING finger protein OIP1 binds to conserved amino acid repeats in sperm tail protein ODF1. Zarsky HA, et al. Biol Reprod, 2003 Feb. PMID 12533418, Free PMC Article
    3. 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
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC93195

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    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
    		  
    Process Evidence Code Pubs
    involved_in male gonad development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatid development NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in sperm flagellum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF38
    Names
    RING finger protein OIP1
    NP_604462.2
    XP_006238074.1
    XP_006238076.1
    XP_006238077.1
    XP_006238078.1
    XP_006238079.1
    XP_006238080.1
    XP_006238082.2
    XP_008761890.1
    XP_017448627.1
    XP_017448628.2
    XP_017448629.2
    XP_038965162.1
    XP_038965163.1
    XP_038965164.1
    XP_038965165.1
    XP_063143199.1
    XP_063143200.1
    XP_063143201.1
    XP_063143202.1
    XP_063143203.1
    XP_063143205.1
    XP_063143206.1
    XP_063143207.1

    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_134467.2 → NP_604462.2  E3 ubiquitin-protein ligase RNF38

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A0G2K8H9, A0A8I5XVZ9
      Related
      ENSRNOP00000074615.2, ENSRNOT00000077367.3
      Conserved Domains (1) summary
      cd16472
      Location:568 → 612
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, 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_086023.1 Reference GRCr8

      Range
      63154507..63263138 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109235.2 → XP_038965163.1  E3 ubiquitin-protein ligase RNF38 isoform X5

      UniProtKB/TrEMBL
      A0A8I5XVZ9
      Conserved Domains (1) summary
      cd16472
      Location:531 → 575
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    2. XM_017593139.3 → XP_017448628.2  E3 ubiquitin-protein ligase RNF38 isoform X4

      UniProtKB/TrEMBL
      A0A8I5XVZ9
      Conserved Domains (1) summary
      cd16472
      Location:534 → 578
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    3. XM_039109234.2 → XP_038965162.1  E3 ubiquitin-protein ligase RNF38 isoform X2

      UniProtKB/TrEMBL
      A0A8I5XVZ9
      Conserved Domains (1) summary
      cd16472
      Location:539 → 583
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    4. XM_006238020.5 → XP_006238082.2  E3 ubiquitin-protein ligase RNF38 isoform X7

      UniProtKB/TrEMBL
      A0A0G2K236, A0A8I5XVZ9
      Related
      ENSRNOP00000072089.2, ENSRNOT00000091944.3
      Conserved Domains (1) summary
      cd16472
      Location:518 → 562
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    5. XM_063287136.1 → XP_063143206.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3

    6. XM_063287137.1 → XP_063143207.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3

    7. XM_006238017.5 → XP_006238079.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      See identical proteins and their annotated locations for XP_006238079.1

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    8. XM_006238015.5 → XP_006238077.1  E3 ubiquitin-protein ligase RNF38 isoform X11

      UniProtKB/TrEMBL
      Q8R4E3
      Related
      ENSRNOP00000056951.2, ENSRNOT00000060203.4
      Conserved Domains (1) summary
      pfam13639
      Location:412 → 453
      zf-RING_2; Ring finger domain

    9. XM_063287129.1 → XP_063143199.1  E3 ubiquitin-protein ligase RNF38 isoform X1

      UniProtKB/TrEMBL
      A0A8I5XVZ9
      Related
      ENSRNOP00000080724.2, ENSRNOT00000109519.2

    10. XM_063287130.1 → XP_063143200.1  E3 ubiquitin-protein ligase RNF38 isoform X3

      UniProtKB/TrEMBL
      A0A8I5XVZ9

    11. XM_017593140.3 → XP_017448629.2  E3 ubiquitin-protein ligase RNF38 isoform X6

      UniProtKB/TrEMBL
      A0A8I5XVZ9, A0A8I5ZJ72
      Conserved Domains (1) summary
      cd16472
      Location:522 → 566
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    12. XM_008763668.4 → XP_008761890.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      See identical proteins and their annotated locations for XP_008761890.1

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    13. XM_039109237.2 → XP_038965165.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    14. XM_006238018.5 → XP_006238080.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      See identical proteins and their annotated locations for XP_006238080.1

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    15. XM_006238016.5 → XP_006238078.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      See identical proteins and their annotated locations for XP_006238078.1

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    16. XM_006238012.5 → XP_006238074.1  E3 ubiquitin-protein ligase RNF38 isoform X8

      UniProtKB/TrEMBL
      A0A8I5XVZ9, A0A8I5ZQX4
      Conserved Domains (1) summary
      pfam13639
      Location:462 → 503
      zf-RING_2; Ring finger domain

    17. XM_017593138.3 → XP_017448627.1  E3 ubiquitin-protein ligase RNF38 isoform X9

      UniProtKB/TrEMBL
      A0A8I5XVZ9

    18. XM_063287133.1 → XP_063143203.1  E3 ubiquitin-protein ligase RNF38 isoform X14

      UniProtKB/TrEMBL
      Q8R4E3

    19. XM_006238014.5 → XP_006238076.1  E3 ubiquitin-protein ligase RNF38 isoform X10

      UniProtKB/TrEMBL
      A0A8I5XVZ9
      Conserved Domains (1) summary
      pfam13639
      Location:428 → 469
      zf-RING_2; Ring finger domain

    20. XM_063287132.1 → XP_063143202.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3

    21. XM_063287135.1 → XP_063143205.1  E3 ubiquitin-protein ligase RNF38 isoform X15

      UniProtKB/TrEMBL
      Q8R4E3

    22. XM_063287131.1 → XP_063143201.1  E3 ubiquitin-protein ligase RNF38 isoform X12

      UniProtKB/TrEMBL
      A0A8I5XVZ9

    23. XM_039109236.2 → XP_038965164.1  E3 ubiquitin-protein ligase RNF38 isoform X13

      UniProtKB/TrEMBL
      F7F0Z9, Q5XIX1, Q8R4E3
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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