Rfx2 regulatory factor X, 2 (influences HLA class II expression) [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rfx2provided by MGI
Official Full Name: regulatory factor X, 2 (influences HLA class II expression)provided by MGI
Primary source: MGI:MGI:106583
See related: Ensembl:ENSMUSG00000024206 AllianceGenome:MGI:106583
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: 5430432H19Rik
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 acrosome assembly; cilium assembly; and positive regulation of transcription by RNA polymerase II. Acts upstream of or within cellular response to leukemia inhibitory factor. Predicted to be located in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; liver; ovary; primitive streak; and sensory organ. Orthologous to human RFX2 (regulatory factor X2). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in testis adult (RPKM 137.0), ovary adult (RPKM 9.7) and 4 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 D; 17 29.5 cM

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (57082897..57138102, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (56775897..56831008, complement)

Chromosome 17 - NC_000083.7 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?

Interplay of RFX transcription factors 1, 2 and 3 in motile ciliogenesis.
Title: Interplay of RFX transcription factors 1, 2 and 3 in motile ciliogenesis.
RFX2 plays a major and specific function in spermiogenesis.
Title: RFX2 Is a Major Transcriptional Regulator of Spermiogenesis.
Data show that that Rfx2 is expressed in motile cilia in mouse and zebrafish embryos
Title: RFX2 is essential in the ciliated organ of asymmetry and an RFX2 transgene identifies a population of ciliated cells sufficient for fluid flow.
RFX2 is potentially an important transcriptional regulator in pachytene spermatocytes; Rfx2 itself is a good candidate to be regulated by A-MYB, which is essential for meiotic progression.
Title: RFX2 is a candidate downstream amplifier of A-MYB regulation in mouse spermatogenesis.
RFX2 may play roles in haploid cells during mouse spermatogenesis
Title: Differential expression of Rfx1-4 during mouse spermatogenesis.
Rfx2 is most abundantly expressed in tissues rich in highly ciliated cells, such as olfactory sensory neurons, and is predicted to be important to cilia.
Title: Tissue expression patterns identify mouse cilia genes.
RFX2 is strongly expressed in pachytene spermatocytes, remains high in early round spermatids, and declines only in advance of nuclear condensation. Maximum expression correlates well with the appearance of H1t.
Title: RFX2 is a potential transcriptional regulatory factor for histone H1t and other genes expressed during the meiotic phase of spermatogenesis.

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Variation

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Alleles

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

Gene trapped (1)
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

NoName (e-PCR)
- UniSTS:237674

X76089 (e-PCR)
- UniSTS:125848

Rfx2 (e-PCR), detects polymorphism
- UniSTS:547300

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IC Inferred by Curator 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	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
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 RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in acrosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	IEP Inferred from Expression Pattern more info	PubMed
involved_in cilium assembly	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
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: DNA-binding protein RFX2

Names: regulatory factor X 2

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_009056.3 → NP_033082.1 DNA-binding protein RFX2 isoform 2

See identical proteins and their annotated locations for NP_033082.1

Status: VALIDATED

Source sequence(s)

CT010491

Consensus CDS

CCDS28915.1

UniProtKB/Swiss-Prot

P48379

Related

ENSMUSP00000084010.6, ENSMUST00000086801.7

Conserved Domains (2) summary

pfam02257
Location:166 → 242

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:19 → 148

RFX1_trans_act; RFX1 transcription activation region
NM_027787.2 → NP_082063.1 DNA-binding protein RFX2 isoform 1

See identical proteins and their annotated locations for NP_082063.1

Status: VALIDATED

Source sequence(s)

CT010491

Consensus CDS

CCDS50156.1

UniProtKB/Swiss-Prot

P48379, Q8BXR3

Related

ENSMUSP00000002444.8, ENSMUST00000002444.15

Conserved Domains (2) summary

pfam02257
Location:195 → 267

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:19 → 148

RFX1_trans_act; RFX1 transcription activation region

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_000083.7 Reference GRCm39 C57BL/6J

Range

57082897..57138102 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036160421.1 → XP_036016314.1 DNA-binding protein RFX2 isoform X1

Conserved Domains (2) summary

pfam02257
Location:152 → 224

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:1 → 105

RFX1_trans_act; RFX1 transcription activation region