Rfx2 regulatory factor X2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rfx2provided by RGD
Official Full Name: regulatory factor X2provided by RGD
Primary source: RGD:1588579
See related: EnsemblRapid:ENSRNOG00000045846 AllianceGenome:RGD:1588579
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
Summary: Enables DNA-binding transcription factor activity and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in regulation of transcription by RNA polymerase II. Located in cytoplasm and nucleus. Orthologous to human RFX2 (regulatory factor X2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Testes (RPKM 144.4), Lung (RPKM 24.7) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q11

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (1691762..1759159, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (1604636..1671220, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (10216194..10283467)

Chromosome 9 - NC_086027.1 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

These data support the hypothesis that RFX2 expression is upregulated in spermatocytes where it participates in activating transcription of the H1t gene and other testis genes.
Title: Transcription factor RFX2 is abundant in rat testis and enriched in nuclei of primary spermatocytes where it appears to be required for transcription of the testis-specific histone H1t gene.
RFX2 and NF-Y binding to the testis-specific histone H1t promoter may be required for transcriptional activation in primary spermatocytes
Title: Binding of RFX2 and NF-Y to the testis-specific histone H1t promoter may be required for transcriptional activation in primary spermatocytes.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay 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	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
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	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in acrosome assembly	IEA Inferred from Electronic Annotation more info
involved_in acrosome assembly	ISO Inferred from Sequence Orthology more info
involved_in acrosome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to leukemia inhibitory factor	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
involved_in cilium assembly	IEA Inferred from Electronic Annotation more info
involved_in cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in cilium assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
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	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: DNA-binding protein RFX2

Names: regulatory factor X 2; regulatory factor X, 2 (influences HLA class II expression)

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_001106877.2 → NP_001100347.1 DNA-binding protein RFX2 isoform 2

See identical proteins and their annotated locations for NP_001100347.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/Swiss-Prot

B2GV50

Related

ENSRNOP00000064610.1, ENSRNOT00000073025.4

Conserved Domains (2) summary

pfam02257
Location:166 → 242

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:12 → 148

RFX1_trans_act; RFX1 transcription activation region
NM_001413766.1 → NP_001400695.1 DNA-binding protein RFX2 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A0A0G2K7V5

Related

ENSRNOP00000074363.1, ENSRNOT00000084312.3

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

NC_086027.1 Reference GRCr8

Range

1691762..1759159 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039083139.2 → XP_038939067.1 DNA-binding protein RFX2 isoform X2

Conserved Domains (2) summary

pfam02257
Location:234 → 309

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:73 → 215

RFX1_trans_act; RFX1 transcription activation region
XM_039083138.2 → XP_038939066.1 DNA-binding protein RFX2 isoform X1

Related

ENSRNOP00000101319.1, ENSRNOT00000132946.1

Conserved Domains (2) summary

pfam02257
Location:262 → 334

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:73 → 215

RFX1_trans_act; RFX1 transcription activation region