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    Pbx4 PBX homeobox 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361131, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Pbx4provided by RGD
    Official Full Name
    PBX homeobox 4provided by RGD
    Primary source
    RGD:1305100
    See related
    EnsemblRapid:ENSRNOG00000010736 AllianceGenome:RGD:1305100
    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
    Edg4
    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. Predicted to be involved in several processes, including eye development; nervous system development; and regulation of transcription by RNA polymerase II. Predicted to be located in XY body. Predicted to be active in nucleus. Orthologous to human PBX4 (PBX homeobox 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 43.7), Adrenal (RPKM 38.9) and 3 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pbx4 in Genome Data Viewer
    Location:
    16p14
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (19588998..19624016, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (19555089..19590054, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (21303117..21338771, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene YjeF N-terminal domain containing 3 Neighboring gene cartilage intermediate layer protein 2 Neighboring gene lysophosphatidic acid receptor 2 Neighboring gene Gem-interacting protein

    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
    • 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. In vivo analysis of developmentally and evolutionarily dynamic protein-DNA interactions regulating transcription of the Pgk2 gene during mammalian spermatogenesis. Yoshioka H, et al. Mol Cell Biol, 2007 Nov. PMID 17875925, Free PMC Article
    2. Pbx4, a new Pbx family member on mouse chromosome 8, is expressed during spermatogenesis. Wagner K, et al. Mech Dev, 2001 May. PMID 11335119
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    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
    		  
    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
    		  
    Component Evidence Code Pubs
    located_in XY body ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    pre-B-cell leukemia transcription factor 4
    Names
    endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor 4
    pre-B-cell leukemia homeobox 4

    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_001108399.1 → NP_001101869.1  pre-B-cell leukemia transcription factor 4

      See identical proteins and their annotated locations for NP_001101869.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474031
      UniProtKB/TrEMBL
      A6KAA9, D4AA41
      Related
      ENSRNOP00000014265.5, ENSRNOT00000014265.7
      Conserved Domains (2) summary
      cd00086
      Location:217 → 277
      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:25 → 215
      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_086034.1 Reference GRCr8

      Range
      19588998..19624016 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006252909.5 → XP_006252971.1  pre-B-cell leukemia transcription factor 4 isoform X2

      See identical proteins and their annotated locations for XP_006252971.1

      Conserved Domains (2) summary
      cd00086
      Location:161 → 221
      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 → 159
      PBC; PBC domain

    2. XM_063275511.1 → XP_063131581.1  pre-B-cell leukemia transcription factor 4 isoform X3

      UniProtKB/TrEMBL
      A6KAB0

    3. XM_063275510.1 → XP_063131580.1  pre-B-cell leukemia transcription factor 4 isoform X2

    4. XM_063275509.1 → XP_063131579.1  pre-B-cell leukemia transcription factor 4 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version

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