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    Zcchc17 zinc finger CCHC-type containing 17 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500555, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Zcchc17provided by RGD
    Official Full Name
    zinc finger CCHC-type containing 17provided by RGD
    Primary source
    RGD:1565267
    See related
    EnsemblRapid:ENSRNOG00000012266 AllianceGenome:RGD:1565267
    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
    RGD1565267
    Summary
    Predicted to enable RNA binding activity and identical protein binding activity. Predicted to be involved in RNA stabilization. Predicted to be located in nucleolus. Predicted to be part of cytosolic large ribosomal subunit. Orthologous to human ZCCHC17 (zinc finger CCHC-type containing 17). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Heart (RPKM 450.7), Muscle (RPKM 177.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zcchc17 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (147942789..147984596, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (142658626..142700440, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (148535519..148577315, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486997 Neighboring gene serine incorporator 2 Neighboring gene small Cajal body-specific RNA 16 Neighboring gene fatty acid binding protein 3 Neighboring gene U6 spliceosomal RNA Neighboring gene small nuclear ribonucleoprotein U5 subunit 40 Neighboring gene ribosomal protein L10, pseudogene 6

    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. ZCCHC17 is a master regulator of synaptic gene expression in Alzheimer's disease. Tomljanovic Z, et al. Bioinformatics, 2018 Feb 1. PMID 29028963, Free PMC Article
    2. Identification of ribosomal proteins specific to higher eukaryotic organisms. Gueydan C, et al. J Biol Chem, 2002 Nov 22. PMID 12202495
    3. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    5. 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

    What's a GeneRIF?
    1. ZCCHC17 loss is an early driver of lower synaptic gene expression in Alzheimer's disease.
      Title: ZCCHC17 is a master regulator of synaptic gene expression in Alzheimer's disease.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA stabilization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of cytosolic large ribosomal subunit ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger CCHC domain-containing protein 17
    Names
    nucleolar protein of 40 kDa
    zinc finger, CCHC domain containing 17

    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_001109267.2 → NP_001102737.1  zinc finger CCHC domain-containing protein 17 isoform 1

      See identical proteins and their annotated locations for NP_001102737.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8I5ZJN0, A6ISP0, D3ZCQ7
      Related
      ENSRNOP00000078016.2, ENSRNOT00000108745.2
      Conserved Domains (1) summary
      cd05686
      Location:13 → 86
      S1_pNO40; pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was ...

    2. NM_001395613.1 → NP_001382542.1  zinc finger CCHC domain-containing protein 17 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      Conserved Domains (1) summary
      cl09927
      Location:1 → 38
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...

    3. NM_001395614.1 → NP_001382543.1  zinc finger CCHC domain-containing protein 17 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005

    RNA

    1. NR_172648.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005

    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
      147942789..147984596 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238970.4 → XP_006239032.1  zinc finger CCHC domain-containing protein 17 isoform X2

      See identical proteins and their annotated locations for XP_006239032.1

      Conserved Domains (1) summary
      cl09927
      Location:1 → 38
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...

    2. XM_039110612.2 → XP_038966540.1  zinc finger CCHC domain-containing protein 17 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZJN0
      Conserved Domains (1) summary
      cl09927
      Location:1 → 62
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...

    3. XM_063288265.1 → XP_063144335.1  zinc finger CCHC domain-containing protein 17 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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