Phox2a paired-like homeobox 2a [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Phox2aprovided by RGD
Official Full Name: paired-like homeobox 2aprovided by RGD
Primary source: RGD:621323
See related: EnsemblRapid:ENSRNOG00000019706 AllianceGenome:RGD:621323
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Arix
Summary: Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in chromatin and nucleus. Human ortholog(s) of this gene implicated in congenital fibrosis of the extraocular muscles 2. Orthologous to human PHOX2A (paired like homeobox 2A). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Adrenal (RPKM 22.3), Testes (RPKM 6.3) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q32

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (165590757..165595122)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (156178754..156183118)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (166893734..166898252)

Chromosome 1 - NC_086019.1 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?

The present study demonstrates an upregulatory effect of Phox2a and Phox2b on the expression of dopamine beta-hydroxylase and norepinephrine transporter in noradrenergic neurons of rat brains
Title: Transcription factor Phox2 upregulates expression of norepinephrine transporter and dopamine β-hydroxylase in adult rat brains.
mapped the distribution of Phox2a in the adult rat brain; data support the conclusion that Phox2a plays an important role in brainstem catecholamine neurotransmission and in the regulation of adaptive homeostatic functions in the adult nervous system
Title: Distribution and phenotype of Phox2a-containing neurons in the adult sprague-dawley rat.
Data show that exogenous Phox2a delivery to embryonic chick midbrain can drive a complete oculomotor complex molecular program, including the production of visceral and somatic motoneurons.
Title: PHOX2A regulation of oculomotor complex nucleogenesis.
data suggest that constitutive expression of Phox2a/2b defines the potential of neurons to become dopaminergic in response to membrane depolarization during a critical window of phenotypic plasticity.
Title: Expression of Phox2 transcription factors and induction of the dopaminergic phenotype in primary sensory neurons.

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General gene information

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Markers

RH128243 (e-PCR)
- UniSTS:211551

X75014 (e-PCR)
- UniSTS:125839

RH137019 (e-PCR)
- UniSTS:219108

RH142431 (e-PCR)
- UniSTS:231678

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, RNA polymerase II-specific	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 transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation 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 locus ceruleus development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within locus ceruleus development	ISO Inferred from Sequence Orthology more info
involved_in midbrain development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within midbrain development	ISO Inferred from Sequence Orthology more info
involved_in noradrenergic neuron differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within noradrenergic neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in oculomotor nerve formation	IEA Inferred from Electronic Annotation more info
involved_in oculomotor nerve formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within parasympathetic nervous system development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
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 respiratory gaseous exchange	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of respiratory gaseous exchange	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
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in somatic motor neuron differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within somatic motor neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in sympathetic nervous system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within sympathetic nervous system development	ISO Inferred from Sequence Orthology more info
involved_in trochlear nerve formation	IEA Inferred from Electronic Annotation more info
involved_in trochlear nerve formation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromatin	IEA Inferred from Electronic Annotation more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: paired mesoderm homeobox protein 2A

Names: ARIX1 homeodomain protein; aristaless homeobox protein homolog

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_053869.2 → NP_446321.2 paired mesoderm homeobox protein 2A

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

A6I6V7, G3V8L2, Q60FX4

Related

ENSRNOP00000026702.7, ENSRNOT00000026702.8

Conserved Domains (1) summary

pfam00046
Location:94 → 147

Homeobox; Homeobox domain