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Pbx3 PBX homeobox 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 311876, updated on 2-Nov-2024

Summary

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Symbol
Pbx3provided by RGD
Full Name
PBX homeobox 3provided by RGD
Primary source
RGD:1307198
See related
EnsemblRapid:ENSRNOG00000022162 AllianceGenome:RGD:1307198
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
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including eye development; nervous system development; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including adult locomotory behavior; dorsal spinal cord development; and regulation of respiratory gaseous exchange by nervous system process. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human PBX3 (PBX homeobox 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 85.8), Brain (RPKM 65.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pbx3 in Genome Data Viewer
Location:
3p11
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (37886241..38079956, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (17488691..17682412, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (13241031..13436084, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120101526 Neighboring gene uncharacterized LOC108350352 Neighboring gene uncharacterized LOC103691768 Neighboring gene uncharacterized LOC108350353 Neighboring gene MAPK associated protein 1 Neighboring gene ribosomal protein S7, pseudogene 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. Downregulation of lncRNA-HEIH curbs esophageal squamous cell carcinoma progression by modulating miR-4458/PBX3. Wang D, et al. Thorac Cancer, 2020 Jul. PMID 32449803, Free PMC Article
  2. Non-synonymous variants in pre-B cell leukemia homeobox (PBX) genes are associated with congenital heart defects. Arrington CB, et al. Eur J Med Genet, 2012 Apr. PMID 22426282, Free PMC Article
  3. In vitro visualization of respiratory neuron activity in the newborn mouse ventral medulla. Onimaru H, et al. Brain Res Dev Brain Res, 2004 Nov 25. PMID 15527896
  4. LncRNA H19 suppresses pyroptosis of cardiomyocytes to attenuate myocardial infarction in a PBX3/CYP1B1-dependent manner. Han Y, et al. Mol Cell Biochem, 2021 Mar. PMID 33389498
  5. Pbx3 is required for normal locomotion and dorsal horn development. Rottkamp CA, et al. Dev Biol, 2008 Feb 1. PMID 18155191

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA H19 suppresses pyroptosis of cardiomyocytes to attenuate myocardial infarction in a PBX3/CYP1B1-dependent manner.
    Title: LncRNA H19 suppresses pyroptosis of cardiomyocytes to attenuate myocardial infarction in a PBX3/CYP1B1-dependent manner.
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, 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 DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within adult locomotory behavior ISO
Inferred from Sequence Orthology
more info
  
involved_in animal organ morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within dorsal spinal cord development ISO
Inferred from Sequence Orthology
more info
  
involved_in embryonic organ development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in eye development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in neuron development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within neuron development ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of respiratory gaseous exchange by nervous system process 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 respiratory gaseous exchange by respiratory system ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
pre-B-cell leukemia transcription factor 3
Names
pre-B-cell leukemia homeobox 3
pre-B-cell leukemia transcription factor 3-like

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_001107834.1 → NP_001101304.1  pre-B-cell leukemia transcription factor 3

    See identical proteins and their annotated locations for NP_001101304.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474001
    UniProtKB/TrEMBL
    A6JUC0, D4AB31
    Related
    ENSRNOP00000087541.2, ENSRNOT00000096937.2
    Conserved Domains (2) summary
    cd00086
    Location:236 → 296
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam03792
    Location:43 → 234
    PBC; PBC 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_086021.1 Reference GRCr8

    Range
    37886241..38079956 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039105260.2 → XP_038961188.1  pre-B-cell leukemia transcription factor 3 isoform X2

    Conserved Domains (2) summary
    cd00086
    Location:55 → 115
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam03792
    Location:1 → 53
    PBC; PBC domain

  2. XM_006233975.4 → XP_006234037.1  pre-B-cell leukemia transcription factor 3 isoform X1

    See identical proteins and their annotated locations for XP_006234037.1

    UniProtKB/TrEMBL
    A0A0G2K9K8, A0A8I6AGR6
    Related
    ENSRNOP00000075035.3, ENSRNOT00000082036.3
    Conserved Domains (2) summary
    cd00086
    Location:236 → 296
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam03792
    Location:43 → 234
    PBC; PBC domain
Nucleotide Protein Strain
Heading Accession and Version

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