Zfp42 zinc finger protein 42 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Zfp42provided by MGI
Official Full Name: zinc finger protein 42provided by MGI
Primary source: MGI:MGI:99187
See related: Ensembl:ENSMUSG00000051176 AllianceGenome:MGI:99187
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: Rex1; Rex-1; Zfp-42
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; regulation of genetic imprinting; and spermatid development. Located in cytoplasm and nucleus. Part of protein-containing complex. Is expressed in early conceptus; gonad; tail; and ureter. Orthologous to human ZFP42 (ZFP42 zinc finger protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward placenta adult (RPKM 4.2) See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 8 A4; 8 23.89 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (43748100..43760041, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (43295067..43307009, complement)

Chromosome 8 - NC_000074.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Roles of the Rlim-Rex1 axis during X chromosome inactivation in mice.
Title: Roles of the Rlim-Rex1 axis during X chromosome inactivation in mice.
ChIP-seq analyses show high colocalization of HMGNs and of REX1, a zinc finger protein, at promoters and enhancers. Loss of HMGNs preferentially reduces the specific binding of REX1 to these chromatin regulatory sites. Thus, HMGNs affects both the expression and the chromatin binding specificity of REX1.
Title: Epigenetic regulation of REX1 expression and chromatin binding specificity by HMGNs.
RNF12 targets pluripotency protein REX1 for degradation to initiate random X chromosome inactivation in embryonic stem cells.
Title: REX1 is the critical target of RNF12 in imprinted X chromosome inactivation in mice.
Data show that zinc finger protein 42 (Rex1) and zinc finger and SCAN domain containing 4D/4C (Zscan4D/4C) correlate with the cell-cycle length under different mechanisms.
Title: Zscan4 Is Activated after Telomere Shortening in Mouse Embryonic Stem Cells.
Results show that a novel pluripotency regulator, REX1, is essential for pluripotency and reprogramming.
Title: Unveiling the critical role of REX1 in the regulation of human stem cell pluripotency.
Rex1 plays a role during preimplantation development and alters expression levels of Zscan4.
Title: Functional analysis of Rex1 during preimplantation development.
Results show that Rex1 regulates endogenous retroviral element expression in mouse embryonic stem cells and during pre-implantation development and suggest that Rex1 and its relatives have evolved as regulators of endogenous retroviral transcription.
Title: Expression of endogenous retroviruses is negatively regulated by the pluripotency marker Rex1/Zfp42.
RNF12 causes REX1 breakdown through dose-dependent catalysis, thereby representing an important pathway to initiate X-chromosome inactivation
Title: RNF12 initiates X-chromosome inactivation by targeting REX1 for degradation.
the involvement of Rex-1 in control of Polycomb target genes during pluripotency or differentiation.
Title: Association of Rex-1 to target genes supports its interaction with Polycomb function.
loss of Rex1 leads to impaired testicular function.
Title: Rex1 (Zfp42) null mice show impaired testicular function, abnormal testis morphology, and aberrant gene expression.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Variation

Go to the top of the page Help

Alleles

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

Gene trapped (1)
Targeted (5) 1 citation
Endonuclease-mediated (2)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

PMC102268P2 (e-PCR)
- UniSTS:270087

PMC299854P1 (e-PCR)
- UniSTS:272467

Zfp42 (e-PCR), detects polymorphism
- UniSTS:265434

Zfp42 (e-PCR), detects polymorphism
- UniSTS:548088

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within genomic imprinting	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within in utero embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within spermatid development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of PcG protein complex	IBA Inferred from Biological aspect of Ancestor more info
part_of chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
part_of transcription regulator complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

Preferred Names: zinc finger protein 42

Names: mREX-1; reduced expression protein 1

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)

NM_001424813.1 → NP_001411742.1 zinc finger protein 42

Status: VALIDATED

Source sequence(s)

AC127575, AC134432

UniProtKB/TrEMBL

E9QK22
NM_001424814.1 → NP_001411743.1 zinc finger protein 42

Status: VALIDATED

Source sequence(s)

AC127575, AC134432

UniProtKB/TrEMBL

E9QK22
NM_001424815.1 → NP_001411744.1 zinc finger protein 42

Status: VALIDATED

Source sequence(s)

AC127575, AC134432

UniProtKB/TrEMBL

E9QK22
NM_009556.4 → NP_033582.2 zinc finger protein 42

See identical proteins and their annotated locations for NP_033582.2

Status: VALIDATED

Source sequence(s)

AC127575, AC134432

Consensus CDS

CCDS22267.1

UniProtKB/Swiss-Prot

P22227, Q4KMN3, Q7TPU3

UniProtKB/TrEMBL

E9QK22

Related

ENSMUSP00000080765.4, ENSMUST00000082120.5

Conserved Domains (2) summary

COG5048
Location:198 → 275

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:201 → 221

ZF_C2H2; C2H2 Zn finger [structural motif]

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_000074.7 Reference GRCm39 C57BL/6J

Range

43748100..43760041 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006509316.5 → XP_006509379.1 zinc finger protein 42 isoform X1

See identical proteins and their annotated locations for XP_006509379.1

UniProtKB/Swiss-Prot

P22227, Q4KMN3, Q7TPU3

UniProtKB/TrEMBL

E9QK22

Conserved Domains (2) summary

COG5048
Location:198 → 275

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:201 → 221

ZF_C2H2; C2H2 Zn finger [structural motif]
XM_011242186.2 → XP_011240488.1 zinc finger protein 42 isoform X1

See identical proteins and their annotated locations for XP_011240488.1

UniProtKB/Swiss-Prot

P22227, Q4KMN3, Q7TPU3

UniProtKB/TrEMBL

E9QK22

Conserved Domains (2) summary

COG5048
Location:198 → 275

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:201 → 221

ZF_C2H2; C2H2 Zn finger [structural motif]