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    Prrx1 paired related homeobox 1 [ Mus musculus (house mouse) ]

    Gene ID: 18933, updated on 9-Dec-2024

    Summary

    Official Symbol
    Prrx1provided by MGI
    Official Full Name
    paired related homeobox 1provided by MGI
    Primary source
    MGI:MGI:97712
    See related
    Ensembl:ENSMUSG00000026586 AllianceGenome:MGI:97712
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    K-2; Pmx; Pmx1; Prx1; mHox; MHox1; A230024N07Rik
    Summary
    Enables several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; HMG box domain binding activity; and RNA polymerase II general transcription initiation factor activity. Involved in negative regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including embryonic morphogenesis; neuronal stem cell population maintenance; and positive regulation of cell population proliferation. Located in nucleus. Is expressed in several structures, including brain; embryo mesenchyme; genitourinary system; heart and pericardium; and sensory organ. Human ortholog(s) of this gene implicated in agnathia-otocephaly complex. Orthologous to human PRRX1 (paired related homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in limb E14.5 (RPKM 22.0), CNS E11.5 (RPKM 6.8) and 8 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Prrx1 in Genome Data Viewer
    Location:
    1 H2.1; 1 70.53 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (163072688..163142714, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (163245119..163315145, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_02849 Neighboring gene predicted gene, 22434 Neighboring gene STARR-seq mESC enhancer starr_02851 Neighboring gene predicted gene, 51850 Neighboring gene STARR-positive B cell enhancer mm9_chr1:165221956-165222257 Neighboring gene predicted gene, 50607 Neighboring gene predicted gene 20471 Neighboring gene golgin, RAB6-interacting Neighboring gene predicted gene, 24940 Neighboring gene STARR-seq mESC enhancer starr_02852 Neighboring gene STARR-seq mESC enhancer starr_02853 Neighboring gene predicted gene, 32333 Neighboring gene predicted gene, 39689

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (5) 
    • Targeted (4)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    acts_upstream_of_or_within artery morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within artery morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cartilage development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within cartilage development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic cranial skeleton morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within embryonic cranial skeleton morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic limb morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within embryonic skeletal system morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within embryonic skeletal system morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within inner ear morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of mesenchymal cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within middle ear morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within middle ear morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neuron fate determination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within neuronal stem cell population maintenance IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of mesenchymal cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of smoothened signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of stem cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within 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 ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of neuron projection regeneration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within roof of mouth development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of smoothened signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of stem cell proliferation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    paired mesoderm homeobox protein 1
    Names
    homeobox protein K-2
    homeobox protein mHox
    muscle homeobox protein
    paired-related homeobox protein 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001025570.1NP_001020741.1  paired mesoderm homeobox protein 1 isoform c

      See identical proteins and their annotated locations for NP_001020741.1

      Status: VALIDATED

      Source sequence(s)
      AC120173, AK084387
      Consensus CDS
      CCDS56651.1
      UniProtKB/TrEMBL
      G3UZ44
      Related
      ENSMUSP00000134338.2, ENSMUST00000174397.3
      Conserved Domains (1) summary
      pfam00046
      Location:99150
      Homeobox; Homeobox domain
    2. NM_011127.2NP_035257.1  paired mesoderm homeobox protein 1 isoform a

      See identical proteins and their annotated locations for NP_035257.1

      Status: VALIDATED

      Source sequence(s)
      AK084387, BC092372
      Consensus CDS
      CCDS15427.1
      UniProtKB/Swiss-Prot
      P43271, P63013, Q02810, Q569N6
      Related
      ENSMUSP00000027878.8, ENSMUST00000027878.14
      Conserved Domains (2) summary
      pfam00046
      Location:99151
      Homeobox; Homeobox domain
      pfam03826
      Location:219235
      OAR; OAR domain
    3. NM_175686.3NP_783617.2  paired mesoderm homeobox protein 1 isoform b

      See identical proteins and their annotated locations for NP_783617.2

      Status: VALIDATED

      Source sequence(s)
      AK084387, BC092372
      Consensus CDS
      CCDS15428.1
      UniProtKB/Swiss-Prot
      P63013
      Related
      ENSMUSP00000075203.7, ENSMUST00000075805.13
      Conserved Domains (1) summary
      pfam00046
      Location:99151
      Homeobox; Homeobox domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      163072688..163142714 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006496703.5XP_006496766.1  paired mesoderm homeobox protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006496766.1

      UniProtKB/Swiss-Prot
      P63013
      Conserved Domains (1) summary
      pfam00046
      Location:99151
      Homeobox; Homeobox domain