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

Gene ID: 313806, updated on 4-Jan-2025

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, Jan 2025]
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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