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    Zcchc17 zinc finger, CCHC domain containing 17 [ Mus musculus (house mouse) ]

    Gene ID: 619605, updated on 23-Jun-2021

    Summary

    Official Symbol
    Zcchc17provided by MGI
    Official Full Name
    zinc finger, CCHC domain containing 17provided by MGI
    Primary source
    MGI:MGI:1919955
    See related
    Ensembl:ENSMUSG00000028772
    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
    Ps; LDC4; pS1D; HSPC2; pNO40; HSPC251; 2810055E05Rik
    Expression
    Ubiquitous expression in cerebellum adult (RPKM 20.1), cortex adult (RPKM 17.9) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Zcchc17 in Genome Data Viewer
    Location:
    4; 4 D2.2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (130209176..130253785, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (130315383..130359992, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (129993329..130037190, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 46724 Neighboring gene serine incorporator 2 Neighboring gene predicted gene, 34957 Neighboring gene fatty acid binding protein 3, muscle and heart Neighboring gene predicted gene, 35074 Neighboring gene small nuclear ribonucleoprotein 40 (U5) Neighboring gene Na+/K+ transporting ATPase interacting 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (3)  1 citation
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables RNA binding TAS
    Traceable Author Statement
    more info
    PubMed 
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    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
    PubMed 
    Component Evidence Code Pubs
    part_of cytosolic large ribosomal subunit IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    nucleolar protein of 40 kDa
    Names
    putative S1 RNA binding domain protein
    zinc finger CCHC domain-containing protein 17

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001355398.1NP_001342327.1  nucleolar protein of 40 kDa isoform 2

      Status: VALIDATED

      Source sequence(s)
      AK152289, AK168912, BY127571, W88172
      Conserved Domains (1) summary
      cl09927
      Location:138
      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. NM_001355399.1NP_001342328.1  nucleolar protein of 40 kDa isoform 2

      Status: VALIDATED

      Source sequence(s)
      AK152289, AK168912, BY127571, CJ155128
      Conserved Domains (1) summary
      cl09927
      Location:138
      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_001355400.1NP_001342329.1  nucleolar protein of 40 kDa isoform 3

      Status: VALIDATED

      Source sequence(s)
      AK152289, AK168912, CB522746
      Conserved Domains (1) summary
      cl09927
      Location:246
      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 ...
    4. NM_153160.5NP_694800.1  nucleolar protein of 40 kDa isoform 1

      See identical proteins and their annotated locations for NP_694800.1

      Status: VALIDATED

      Source sequence(s)
      AK152289, AK168912, BY127571
      Consensus CDS
      CCDS38891.1
      UniProtKB/Swiss-Prot
      Q9ESX4
      UniProtKB/TrEMBL
      Q3TG23
      Related
      ENSMUSP00000120807.3, ENSMUST00000134159.3
      Conserved Domains (1) summary
      cd05686
      Location:1386
      S1_pNO40; 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. ...

    RNA

    1. NR_149716.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK152289, AK168912, BY127571, CJ146112
    2. NR_149717.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK152289, AK168912, BY127571, CX201778

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      130209176..130253785 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503257.4XP_006503320.1  nucleolar protein of 40 kDa isoform X1

      Conserved Domains (1) summary
      cl09927
      Location:162
      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_030253690.2XP_030109550.1  nucleolar protein of 40 kDa isoform X2

      Conserved Domains (1) summary
      cl09927
      Location:246
      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 ...
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