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Pitx3 paired-like homeodomain 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29609, updated on 17-Aug-2024

Summary

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Official Symbol
Pitx3provided by RGD
Official Full Name
paired-like homeodomain 3provided by RGD
Primary source
RGD:3332
See related
EnsemblRapid:ENSRNOG00000019194 AllianceGenome:RGD:3332
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. Involved in several processes, including cellular response to glial cell derived neurotrophic factor; positive regulation of cell proliferation in midbrain; and response to alkaloid. Located in chromatin; cytoplasm; and nucleus. Human ortholog(s) of this gene implicated in anterior segment dysgenesis; anterior segment dysgenesis 1; cataract; cataract 11 multiple types; and cataract 9 multiple types. Orthologous to human PITX3 (paired like homeodomain 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward (RPKM 20.1) See more
Orthologs
human mouse all
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Genomic context

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Location:
1q54
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (254942550..254955325, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (245001106..245013881, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (265886766..265899947, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene PPARG related coactivator 1 Neighboring gene nucleolar and coiled-body phosphoprotein 1 Neighboring gene ELOVL fatty acid elongase 3 Neighboring gene ATP synthase membrane subunit g, pseudogene 12 Neighboring gene uncharacterized LOC134484079 Neighboring gene U6 spliceosomal RNA Neighboring gene golgi brefeldin A resistant guanine nucleotide exchange factor 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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Related articles in PubMed

  1. Morphine administration modulates expression of Argonaute 2 and dopamine-related transcription factors involved in midbrain dopaminergic neurons function. García-Pérez D, et al. Br J Pharmacol, 2013 Apr. PMID 23215787, Free PMC Article
  2. Chronic methamphetamine administration causes differential regulation of transcription factors in the rat midbrain. Krasnova IN, et al. PLoS One, 2011 Apr 25. PMID 21547080, Free PMC Article
  3. Ontogenetic expression of dopamine-related transcription factors and tyrosine hydroxylase in prenatally stressed rats. Katunar MR, et al. Neurotox Res, 2010 Jul. PMID 19936865
  4. Pitx3-transfected astrocytes secrete brain-derived neurotrophic factor and glial cell line-derived neurotrophic factor and protect dopamine neurons in mesencephalon cultures. Yang D, et al. J Neurosci Res, 2008 Nov 15. PMID 18646205
  5. Effects on differentiation of embryonic ventral midbrain progenitors by Lmx1a, Msx1, Ngn2, and Pitx3. Roybon L, et al. J Neurosci, 2008 Apr 2. PMID 18385323, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. a significant reduction in expression of the dopaminergic regulation factors Nurr1 and Pitx3 could not effectively regulate TH in the VTA during chronic morphine dependence, which affects the survival of dopaminergic neurons and ultimately leads to neuronal pathology.
    Title: Dysregulation of Dopaminergic Regulatory Factors TH, Nurr1, and Pitx3 in the Ventral Tegmental Area Associated with Neuronal Injury Induced by Chronic Morphine Dependence.
  2. Thus, this study demonstrates for the first time a transcription regulatory role for FoxP1 on the Pitx3 gene in mammalian stem cells.
    Title: FoxP1 promotes midbrain identity in embryonic stem cell-derived dopamine neurons by regulating Pitx3.
  3. results show that the expression of both Nurr1 and Pitx3 increased in prenatally stressed adult offspring in the ventral tegmental area, whereas no changes were observed in the substantia nigra area
    Title: Immunocytochemical expression of dopamine-related transcription factors Pitx3 and Nurr1 in prenatally stressed adult rats.
  4. Pitx3-transfection in astrocytes can up-regulate brain-derived neurotrophic factor and glial cell line-derived neurotrophic factor expression and produce protective benefit to dopamine neurons
    Title: Pitx3-transfected astrocytes secrete brain-derived neurotrophic factor and glial cell line-derived neurotrophic factor and protect dopamine neurons in mesencephalon cultures.
  5. higher Pitx3 expression levels in ventral tegmental area than in substantia nigra neurons may contribute to the different vulnerability of these dopaminergic nuclei to neurodegeneration
    Title: Differential expression of the homeobox gene Pitx3 in midbrain dopaminergic neurons.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
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, 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 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 anatomical structure morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cellular response to glial cell derived neurotrophic factor IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in dopaminergic neuron differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in dopaminergic neuron differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in lens development in camera-type eye ISO
Inferred from Sequence Orthology
more info
  
involved_in lens development in camera-type eye ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in lens fiber cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in lens morphogenesis in camera-type eye ISO
Inferred from Sequence Orthology
more info
  
involved_in lens morphogenesis in camera-type eye ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within locomotory behavior ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within midbrain development ISO
Inferred from Sequence Orthology
more info
  
involved_in midbrain development ISO
Inferred from Sequence Orthology
more info
  
involved_in midbrain development ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of gliogenesis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of neurogenesis IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within neuron development ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of cell proliferation in midbrain IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of neuron apoptotic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within regulation of gene expression 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 response to cocaine IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to immobilization stress IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to methamphetamine hydrochloride IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
part_of chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
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
pituitary homeobox 3
Names
homeobox protein PITX3
homeobox protein PTX3
paired-like homeodomain transcription factor 3

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)

  1. NM_019247.2 → NP_062120.1  pituitary homeobox 3

    See identical proteins and their annotated locations for NP_062120.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/Swiss-Prot
    P81062
    UniProtKB/TrEMBL
    A6JHL3
    Related
    ENSRNOP00000026013.2, ENSRNOT00000026013.5
    Conserved Domains (3) summary
    PTZ00395
    Location:142 → 236
    PTZ00395; Sec24-related protein; Provisional
    pfam00046
    Location:66 → 119
    Homeobox; Homeobox domain
    pfam03826
    Location:258 → 275
    OAR; OAR domain

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

  1. NC_086019.1 Reference GRCr8

    Range
    254942550..254955325 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231478.4 → XP_006231540.1  pituitary homeobox 3 isoform X1

    See identical proteins and their annotated locations for XP_006231540.1

    UniProtKB/Swiss-Prot
    P81062
    UniProtKB/TrEMBL
    A6JHL3
    Conserved Domains (3) summary
    PTZ00395
    Location:142 → 236
    PTZ00395; Sec24-related protein; Provisional
    pfam00046
    Location:66 → 119
    Homeobox; Homeobox domain
    pfam03826
    Location:258 → 275
    OAR; OAR domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P81062.2 GenPept UniProtKB/Swiss-Prot:P81062

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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