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

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 AllianceGenome:MGI:1919955
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: LDC4; pS1D; pNO40; HSPC251; 2810055E05Rik
Summary: Predicted to enable RNA binding activity and identical protein binding activity. Predicted to be involved in RNA stabilization. Located in nucleolus. Part of cytosolic large ribosomal subunit. Is expressed in central nervous system and sensory organ. Orthologous to human ZCCHC17 (zinc finger CCHC-type containing 17). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in cerebellum adult (RPKM 20.1), cortex adult (RPKM 17.9) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 D2.2; 4 63.43 cM

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	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)

Chromosome 4 - NC_000070.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

pNO40 may function as a general recruiter for nucleolar association of SR proteins and regulation of its expression may be crucial in cellular homeostasis.
Title: Ribosomal protein pNO40 mediates nucleolar sequestration of SR family splicing factors and its overexpression impairs mRNA metabolism.
We herein established a mouse model of MSC aging through pNO40-targeted depletion and demonstrated the effects of loss of pNO40 on bone homeostasis.
Title: Target disruption of ribosomal protein pNO40 accelerates aging and impairs osteogenic differentiation of mesenchymal stem cells.
molecular cloning and characterization; it is localized to nucleoli of diverse cultured cells, with some concentration in the granular component of nucleoli
Title: Molecular characterization of a novel nucleolar protein, pNO40.
These observations indicate that PS1D is the first eukaryotic ribosomal protein that is specific to higher eukaryotes.
Title: Identification of ribosomal proteins specific to higher eukaryotic organisms.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Zcchc17 (e-PCR), detects polymorphism
- UniSTS:479141

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
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

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
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: zinc finger CCHC domain-containing protein 17

Names: nucleolar protein of 40 kDa; putative S1 RNA binding domain 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)

NM_001355398.1 → NP_001342327.1 zinc finger CCHC domain-containing protein 17 isoform 2

Status: VALIDATED

Source sequence(s)

AK152289, AK168912, BY127571, W88172

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 ...
NM_001355399.1 → NP_001342328.1 zinc finger CCHC domain-containing protein 17 isoform 2

Status: VALIDATED

Source sequence(s)

AK152289, AK168912, BY127571, CJ155128

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 ...
NM_001355400.1 → NP_001342329.1 zinc finger CCHC domain-containing protein 17 isoform 3

Status: VALIDATED

Source sequence(s)

AK152289, AK168912, CB522746

Conserved Domains (1) summary

cl09927
Location:2 → 46

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 ...
NM_153160.5 → NP_694800.1 zinc finger CCHC domain-containing protein 17 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:13 → 86

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

NR_149716.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AK152289, AK168912, BY127571, CJ146112
NR_149717.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AK152289, AK168912, BY127571, CX201778

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

NC_000070.7 Reference GRCm39 C57BL/6J

Range

130209176..130253785 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006503257.4 → XP_006503320.1 zinc finger CCHC domain-containing protein 17 isoform X1

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 ...
XM_030253690.2 → XP_030109550.1 zinc finger CCHC domain-containing protein 17 isoform X2

Conserved Domains (1) summary

cl09927
Location:2 → 46

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 ...