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Rnf39 ring finger protein 39 [ Rattus norvegicus (Norway rat) ]

Gene ID: 171387, updated on 18-Sep-2024

Summary

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Official Symbol
Rnf39provided by RGD
Official Full Name
ring finger protein 39provided by RGD
Primary source
RGD:628854
See related
AllianceGenome:RGD:628854
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
Lirf; Hzfw1
Summary
Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in innate immune response; protein ubiquitination; and regulation of gene expression. Predicted to be active in cytoplasm. Orthologous to human RNF39 (ring finger protein 39). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Lung (RPKM 51.3), Liver (RPKM 37.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Rnf39 in Genome Data Viewer
Location:
20p12
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (1610027..1615516, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (1604794..1610283, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (2098375..2103864, complement)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene RT1 class I, locus M6, gene 2 Neighboring gene ZNRD1 antisense RNA 1 Neighboring gene RNA polymerase I subunit H Neighboring gene protein phosphatase 1, regulatory (inhibitor) subunit 11 Neighboring gene uncharacterized LOC102554813 Neighboring gene tripartite motif-containing 31

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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GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of neuronal synaptic plasticity NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
RING finger protein 39
Names
LTP-induced RING finger protein

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_134374.2 → NP_599201.1  RING finger protein 39

    See identical proteins and their annotated locations for NP_599201.1

    Status: VALIDATED

    Source sequence(s)
    BX883051
    UniProtKB/Swiss-Prot
    Q920M2
    UniProtKB/TrEMBL
    A0A8I6ASY8, A6KR81
    Conserved Domains (4) summary
    TIGR00599
    Location:14 → 205
    rad18; DNA repair protein rad18
    cd00162
    Location:20 → 66
    RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
    cl02614
    Location:161 → 347
    SPRY; SPRY domain
    cl17238
    Location:18 → 66
    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_086038.1 Reference GRCr8

    Range
    1610027..1615516 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q920M2.1 GenPept UniProtKB/Swiss-Prot:Q920M2

Gene LinkOut

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

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