Zc3h4 zinc finger CCCH-type containing 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Zc3h4provided by MGI
Official Full Name: zinc finger CCCH-type containing 4provided by MGI
Primary source: MGI:MGI:2682314
See related: Ensembl:ENSMUSG00000059273 AllianceGenome:MGI:2682314
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: Bwq1; Gm768; Kiaa1064-hp
Summary: Enables chromatin binding activity. Involved in RNA catabolic process and negative regulation of DNA-templated transcription. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including early conceptus; oocyte; retina; and telencephalon. Orthologous to human ZC3H4 (zinc finger CCCH-type containing 4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in thymus adult (RPKM 20.9), spleen adult (RPKM 16.4) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 A2; 7 9.03 cM

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (16132549..16171621)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (16399583..16437696)

Chromosome 7 - NC_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

CircDYM attenuates microglial apoptosis via CEBPB/ZC3H4 axis in LPS-induced mouse model of depression.
Title: CircDYM attenuates microglial apoptosis via CEBPB/ZC3H4 axis in LPS-induced mouse model of depression.
ZC3H4 governs epithelial cell migration through ROCK/p-PYK2/p-MLC2 pathway in silica-induced pulmonary fibrosis.
Title: ZC3H4 governs epithelial cell migration through ROCK/p-PYK2/p-MLC2 pathway in silica-induced pulmonary fibrosis.
ZC3H4 promotes pulmonary fibrosis via an ER stress-related positive feedback loop.
Title: ZC3H4 promotes pulmonary fibrosis via an ER stress-related positive feedback loop.
ZC3H4-a novel Cys-Cys-Cys-His-type zinc finger protein-is essential for early embryogenesis in micedagger.
Title: ZC3H4-a novel Cys-Cys-Cys-His-type zinc finger protein-is essential for early embryogenesis in mice†.
Elk-1 transcriptionally regulates ZC3H4 expression to promote silica-induced epithelial-mesenchymal transition.
Title: Elk-1 transcriptionally regulates ZC3H4 expression to promote silica-induced epithelial-mesenchymal transition.
may act as a novel regulator in the progression of SiO2-induced epithelial to mesenchymal transition
Title: The emerging roles of a novel CCCH-type zinc finger protein, ZC3H4, in silica-induced epithelial to mesenchymal transition.
study elucidates a link between SiO2-induced macrophage activation and the circZC3H4 RNA/ZC3H4 pathway, thereby providing novel insight into the potential use of ZC3H4 to develop novel therapeutic strategies for silicosis.
Title: Silica-induced initiation of circular ZC3H4 RNA/ZC3H4 pathway promotes the pulmonary macrophage activation.

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Phenotypes

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Associated conditions

Description	Tests
body weight QTL 1 GeneReviews: Not available

Variation

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Alleles

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

Endonuclease-mediated (3)
QTL (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D4Mit1 (e-PCR), detects polymorphism
- UniSTS:129872

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription termination	IEA Inferred from Electronic Annotation more info
involved_in lncRNA catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in lncRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription, elongation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of DNA-templated transcription, elongation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lncRNA transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of lncRNA transcription	ISO Inferred from Sequence Orthology more info
involved_in nuclear RNA surveillance	IDA Inferred from Direct Assay more info	PubMed
involved_in nuclear RNA surveillance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: zinc finger CCCH domain-containing protein 4

NP_001414239.1

EC 3.6.4.-

NP_001414240.1

EC 3.6.4.-

NP_001414241.1

EC 3.6.4.-

NP_001414242.1

EC 3.6.4.-

NP_941033.2

EC 3.6.4.-

XP_006540165.1

EC 3.6.4.-

XP_006540166.1

EC 3.6.4.-

XP_006540167.1

EC 3.6.4.-

XP_006540168.1

EC 3.6.4.-

XP_006540169.1

EC 3.6.4.-

XP_006540170.1

EC 3.6.4.-

XP_011248906.1

EC 3.6.4.-

XP_036009070.1

EC 3.6.4.-

XP_036009071.1

EC 3.6.4.-

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_001427310.1 → NP_001414239.1 zinc finger CCCH domain-containing protein 4 isoform 1

Status: VALIDATED

Source sequence(s)

AC164880

UniProtKB/Swiss-Prot

Q6ZPZ3

Related

ENSMUSP00000159993.1, ENSMUST00000249896.1
NM_001427311.1 → NP_001414240.1 zinc finger CCCH domain-containing protein 4 isoform 3

Status: VALIDATED

Source sequence(s)

AC164880
NM_001427312.1 → NP_001414241.1 zinc finger CCCH domain-containing protein 4 isoform 4

Status: VALIDATED

Source sequence(s)

AC164880
NM_001427313.1 → NP_001414242.1 zinc finger CCCH domain-containing protein 4 isoform 5

Status: VALIDATED

Source sequence(s)

AC164880

UniProtKB/TrEMBL

A0A1B0GRU3

Related

ENSMUSP00000147665.2, ENSMUST00000209289.2
NM_198631.2 → NP_941033.2 zinc finger CCCH domain-containing protein 4 isoform 2

Status: VALIDATED

Source sequence(s)

AC164880, AK129275, BC057627, BC060274, BY167917, CF538051, CJ101946, CN667093

Consensus CDS

CCDS52040.1

UniProtKB/TrEMBL

E9Q8K8

Related

ENSMUSP00000096386.4, ENSMUST00000098789.5

Conserved Domains (2) summary

smart00356
Location:371 → 395

ZnF_C3H1; zinc finger

pfam13376
Location:724 → 749

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated

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_000073.7 Reference GRCm39 C57BL/6J

Range

16132549..16171621

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036153177.1 → XP_036009070.1 zinc finger CCCH domain-containing protein 4 isoform X2

Conserved Domains (5) summary

smart00356
Location:401 → 425

ZnF_C3H1; zinc finger

PHA03247
Location:974 → 1260

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:427 → 449

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam13376
Location:754 → 779

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated

pfam18044
Location:374 → 395

zf-CCCH_4; CCCH-type zinc finger
XM_006540106.5 → XP_006540169.1 zinc finger CCCH domain-containing protein 4 isoform X6

Conserved Domains (4) summary

smart00356
Location:420 → 444

ZnF_C3H1; zinc finger

PHA03247
Location:910 → 1196

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:446 → 467

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam18044
Location:393 → 414

zf-CCCH_4; CCCH-type zinc finger
XM_006540102.5 → XP_006540165.1 zinc finger CCCH domain-containing protein 4 isoform X1

See identical proteins and their annotated locations for XP_006540165.1

UniProtKB/Swiss-Prot

Q6ZPZ3

Conserved Domains (5) summary

smart00356
Location:420 → 444

ZnF_C3H1; zinc finger

PHA03247
Location:993 → 1279

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:446 → 467

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam18044
Location:393 → 414

zf-CCCH_4; CCCH-type zinc finger

pfam13376
Location:773 → 798

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated
XM_006540107.5 → XP_006540170.1 zinc finger CCCH domain-containing protein 4 isoform X1

See identical proteins and their annotated locations for XP_006540170.1

UniProtKB/Swiss-Prot

Q6ZPZ3

Conserved Domains (5) summary

smart00356
Location:420 → 444

ZnF_C3H1; zinc finger

PHA03247
Location:993 → 1279

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:446 → 467

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam18044
Location:393 → 414

zf-CCCH_4; CCCH-type zinc finger

pfam13376
Location:773 → 798

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated
XM_011250604.4 → XP_011248906.1 zinc finger CCCH domain-containing protein 4 isoform X4

See identical proteins and their annotated locations for XP_011248906.1

Conserved Domains (5) summary

smart00356
Location:379 → 403

ZnF_C3H1; zinc finger

PHA03247
Location:952 → 1238

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:405 → 427

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam13376
Location:732 → 757

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated

pfam18044
Location:352 → 373

zf-CCCH_4; CCCH-type zinc finger
XM_006540103.5 → XP_006540166.1 zinc finger CCCH domain-containing protein 4 isoform X3

Conserved Domains (5) summary

smart00356
Location:384 → 408

ZnF_C3H1; zinc finger

PHA03247
Location:957 → 1243

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:410 → 431

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam18044
Location:357 → 378

zf-CCCH_4; CCCH-type zinc finger

pfam13376
Location:737 → 762

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated
XM_006540104.4 → XP_006540167.1 zinc finger CCCH domain-containing protein 4 isoform X4

See identical proteins and their annotated locations for XP_006540167.1

Conserved Domains (5) summary

smart00356
Location:379 → 403

ZnF_C3H1; zinc finger

PHA03247
Location:952 → 1238

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:405 → 427

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam13376
Location:732 → 757

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated

pfam18044
Location:352 → 373

zf-CCCH_4; CCCH-type zinc finger
XM_006540105.4 → XP_006540168.1 zinc finger CCCH domain-containing protein 4 isoform X5

Conserved Domains (5) summary

smart00356
Location:374 → 398

ZnF_C3H1; zinc finger

PHA03247
Location:947 → 1233

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:400 → 421

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam18044
Location:347 → 368

zf-CCCH_4; CCCH-type zinc finger

pfam13376
Location:727 → 752

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated
XM_036153178.1 → XP_036009071.1 zinc finger CCCH domain-containing protein 4 isoform X4

Conserved Domains (5) summary

smart00356
Location:379 → 403

ZnF_C3H1; zinc finger

PHA03247
Location:952 → 1238

PHA03247; large tegument protein UL36; Provisional

pfam00642
Location:405 → 427

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

pfam13376
Location:732 → 757

OmdA; Bacteriocin-protection, YdeI or OmpD-Associated

pfam18044
Location:352 → 373

zf-CCCH_4; CCCH-type zinc finger