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

Gene ID: 171501, updated on 2-Nov-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, Nov 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 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

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

    UniProtKB/TrEMBL
    F7F0Z9, Q5XIX1

  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

    Related
    ENSRNOP00000080724.2, ENSRNOT00000109519.2

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

  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

  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

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

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

  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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