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    Zfp598 zinc finger protein 598 [ Mus musculus (house mouse) ]

    Gene ID: 213753, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Zfp598provided by MGI
    Official Full Name
    zinc finger protein 598provided by MGI
    Primary source
    MGI:MGI:2670965
    See related
    Ensembl:ENSMUSG00000041130 AllianceGenome:MGI:2670965
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Ntrap; Znf598
    Summary
    Predicted to enable several functions, including ribosome binding activity; stalled ribosome sensor activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including protein ubiquitination; rescue of stalled ribosome; and ribosome-associated ubiquitin-dependent protein catabolic process. Predicted to be located in cytosol. Predicted to be active in cytosolic ribosome. Is expressed in early conceptus; future spinal cord; inner cell mass; and oocyte. Orthologous to human ZNF598 (zinc finger protein 598, E3 ubiquitin ligase). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in colon adult (RPKM 52.8), ovary adult (RPKM 51.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zfp598 in Genome Data Viewer
    Location:
    17 A3.3; 17 12.46 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (24888661..24900997)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (24669687..24682023)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene NHERF family PDZ scaffold protein 2 Neighboring gene neuropeptide W Neighboring gene STARR-positive B cell enhancer ABC_E11630 Neighboring gene synaptogyrin 3 Neighboring gene growth factor, augmenter of liver regeneration

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Retrograde neurotrophic signaling requires a protein interacting with receptor tyrosine kinases via C2H2 zinc fingers. Fu X, et al. Mol Biol Cell, 2010 Jan 1. PMID 19864463, Free PMC Article
    2. Laser capture microdissection and cDNA array analysis for identification of mouse KIAA/FLJ genes differentially expressed in the embryonic dorsal spinal cord. Masuda T, et al. Brain Res, 2009 Jan 16. PMID 19026994
    3. Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Apr 30. PMID 15449545
    4. The TRIM9/TRIM67 neuronal interactome reveals novel activators of morphogenesis. Menon S, et al. Mol Biol Cell, 2021 Feb 15. PMID 33378226, Free PMC Article
    5. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NTRAP regulates retrograde neurotrophic signaling by controlling the formation of signaling endosomes.
      Title: Retrograde neurotrophic signaling requires a protein interacting with receptor tyrosine kinases via C2H2 zinc fingers.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-RNA adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribosome binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ribosome binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribosome binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables stalled ribosome sensor activity ISO
    Inferred from Sequence Orthology
    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 ubiquitin protein ligase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of translational initiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K63-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K63-linked ubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein monoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein monoubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    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 protein ubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in rescue of stalled ribosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rescue of stalled ribosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in rescue of stalled ribosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in ribosome-associated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ribosome-associated ubiquitin-dependent protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in cytosolic ribosome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase ZNF598
    NP_001335160.1
    NP_898972.1
    XP_006524063.1

    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_001348231.1 → NP_001335160.1  E3 ubiquitin-protein ligase ZNF598 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC154566, BC050859, BQ180106, CF537189
      Consensus CDS
      CCDS89013.1
      UniProtKB/Swiss-Prot
      Q80YR4
      Related
      ENSMUSP00000038367.7, ENSMUST00000047179.7
      Conserved Domains (2) summary
      COG5236
      Location:27 → 336
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      cl26464
      Location:366 → 675
      Atrophin-1; Atrophin-1 family

    2. NM_183149.2 → NP_898972.1  E3 ubiquitin-protein ligase ZNF598 isoform 1

      See identical proteins and their annotated locations for NP_898972.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC154566, BC050859, CF537189
      Consensus CDS
      CCDS28490.1
      UniProtKB/Swiss-Prot
      Q6KAT0, Q80YR4, Q8R3S1
      Related
      ENSMUSP00000157172.2, ENSMUST00000234956.2
      Conserved Domains (1) summary
      COG5236
      Location:27 → 326
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000083.7 Reference GRCm39 C57BL/6J

      Range
      24888661..24900997
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006524000.1 → XP_006524063.1  E3 ubiquitin-protein ligase ZNF598 isoform X1

      Conserved Domains (2) summary
      PHA03247
      Location:198 → 507
      PHA03247; large tegument protein UL36; Provisional
      COG5236
      Location:11 → 155
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80YR4.1 GenPept UniProtKB/Swiss-Prot:Q80YR4

    Gene LinkOut

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

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