rfx2 regulatory factor X, 2 (influences HLA class II expression) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rfx2provided by ZNC
Official Full Name: regulatory factor X, 2 (influences HLA class II expression)provided by ZNC
Primary source: ZFIN:ZDB-GENE-050227-4
See related: Ensembl:ENSDARG00000013575 AllianceGenome:ZFIN:ZDB-GENE-050227-4
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb7; zfx2; cb133; sb:cb7; sb:cb133; zgc:91808; wu:fd20b11
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within Kupffer's vesicle development and determination of left/right symmetry. Predicted to be located in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; mesoderm; neural plate; neural tube; and pronephros. Orthologous to human RFX2 (regulatory factor X2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 8

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	8	NC_007119.7 (20073063..20138341, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	8	NC_007119.6 (20040978..20106283, complement)

Chromosome 8 - NC_007119.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.

Submit: New GeneRIF Correction

General gene information

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Markers

fd20b11.x1 (e-PCR)
- UniSTS:204266

G40255 (e-PCR)
- UniSTS:14833

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity 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	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within Kupffer's vesicle development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell projection organization	IEA Inferred from Electronic Annotation more info
involved_in cilium assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation 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	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
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

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_001013278.1 → NP_001013296.1 DNA-binding protein RFX2

See identical proteins and their annotated locations for NP_001013296.1

Status: PROVISIONAL

Source sequence(s)

BC090314

UniProtKB/Swiss-Prot

Q5EAP5

Related

ENSDARP00000039332.7, ENSDART00000029939.9

Conserved Domains (2) summary

pfam02257
Location:205 → 277

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:11 → 158

RFX1_trans_act; RFX1 transcription activation region

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007119.7 Reference GRCz11 Primary Assembly

Range

20073063..20138341 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005166837.4 → XP_005166894.1 DNA-binding protein RFX2 isoform X1

UniProtKB/TrEMBL

A0A8M2BEC2

Conserved Domains (2) summary

pfam02257
Location:180 → 252

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:11 → 158

RFX1_trans_act; RFX1 transcription activation region
XM_005166838.4 → XP_005166895.1 DNA-binding protein RFX2 isoform X2

UniProtKB/TrEMBL

A0A8M2BEA3

Conserved Domains (2) summary

pfam02257
Location:175 → 247

RFX_DNA_binding; RFX DNA-binding domain

pfam04589
Location:11 → 128

RFX1_trans_act; RFX1 transcription activation region