U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 500555, updated on 27-Nov-2024

Summary

Go to the top of the page Help
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, Nov 2024]
Expression
Biased expression in Heart (RPKM 450.7), Muscle (RPKM 177.1) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
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

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

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

Go to the top of the page Help

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

Go to the top of the page Help
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)

Go to the top of the page Help

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_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

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools