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    Rnf19b ring finger protein 19B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313806, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rnf19bprovided by RGD
    Official Full Name
    ring finger protein 19Bprovided by RGD
    Primary source
    RGD:1305470
    See related
    EnsemblRapid:ENSRNOG00000000123 AllianceGenome:RGD:1305470
    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
    Ibrdc3
    Summary
    Predicted to enable ubiquitin binding activity; ubiquitin conjugating enzyme binding activity; and ubiquitin protein ligase activity. Predicted to be involved in protein autoubiquitination and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within natural killer cell mediated cytotoxicity. Predicted to be located in cytosol and endoplasmic reticulum. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytolytic granule. Orthologous to human RNF19B (ring finger protein 19B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 351.4), Spleen (RPKM 96.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnf19b in Genome Data Viewer
    Location:
    5q36
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (146690453..146715729)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (141406085..141431376)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (147246032..147270892)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene antizyme inhibitor 2 Neighboring gene ring finger protein 7-like Neighboring gene adenylate kinase 2 Neighboring gene uncharacterized LOC102551249 Neighboring gene transmembrane protein 54 Neighboring gene hippocalcin Neighboring gene fibronectin type III domain containing 5

    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. Genome-wide identification and gene expression profiling of ubiquitin ligases for endoplasmic reticulum protein degradation. Kaneko M, et al. Sci Rep, 2016 Aug 3. PMID 27485036, Free PMC Article
    2. Impaired NK cytolytic activity and enhanced tumor growth in NK lytic-associated molecule-deficient mice. Hoover RG, et al. J Immunol, 2009 Dec 1. PMID 19915045
    3. Maturation of human dendritic cells is accompanied by functional remodelling of the ubiquitin-proteasome system. Ebstein F, et al. Int J Biochem Cell Biol, 2009 May. PMID 19028597
    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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin conjugating enzyme binding IBA
    Inferred from Biological aspect of Ancestor
    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 zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within natural killer cell mediated cytotoxicity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein autoubiquitination ISO
    Inferred from Sequence Orthology
    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 cytolytic granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytolytic granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF19B
    Names
    IBR domain containing 3
    NP_001386134.1
    XP_038966054.1
    XP_038966055.1

    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_001399205.1 → NP_001386134.1  E3 ubiquitin-protein ligase RNF19B

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A0G2K6H9
      Related
      ENSRNOP00000073821.2, ENSRNOT00000089457.3
      Conserved Domains (5) summary
      smart00647
      Location:181 → 245
      IBR; In Between Ring fingers
      cd00162
      Location:113 → 160
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam01485
      Location:276 → 314
      IBR; IBR domain, a half RING-finger domain
      cl00570
      Location:340 → 429
      AzlC; AzlC protein
      cl17238
      Location:113 → 166
      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_086023.1 Reference GRCr8

      Range
      146690453..146715729
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110126.2 → XP_038966054.1  E3 ubiquitin-protein ligase RNF19B isoform X1

      UniProtKB/TrEMBL
      A0A0G2K6H9
      Conserved Domains (5) summary
      smart00647
      Location:181 → 245
      IBR; In Between Ring fingers
      cd00162
      Location:113 → 160
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam01485
      Location:276 → 314
      IBR; IBR domain, a half RING-finger domain
      cl00570
      Location:340 → 429
      AzlC; AzlC protein
      cl17238
      Location:113 → 166
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    2. XM_039110127.2 → XP_038966055.1  E3 ubiquitin-protein ligase RNF19B isoform X2

      Conserved Domains (5) summary
      smart00647
      Location:181 → 245
      IBR; In Between Ring fingers
      cd00162
      Location:113 → 160
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam01485
      Location:276 → 314
      IBR; IBR domain, a half RING-finger domain
      cl00570
      Location:340 → 429
      AzlC; AzlC protein
      cl17238
      Location:113 → 166
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108003.1: Suppressed sequence

      Description
      NM_001108003.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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