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    Vax1 ventral anterior homeobox 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 64571, updated on 9-Dec-2024

    Summary

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    Symbol
    Vax1provided by RGD
    Full Name
    ventral anterior homeobox 1provided by RGD
    Primary source
    RGD:621132
    See related
    EnsemblRapid:ENSRNOG00000008824 AllianceGenome:RGD:621132
    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 activity and DNA-binding transcription repressor activity, RNA polymerase II-specific. Predicted to be involved in brain development; neuron differentiation; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including negative regulation of neuroblast proliferation; neurogenesis; and skeletal muscle cell differentiation. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in syndromic microphthalmia 11. Orthologous to human VAX1 (ventral anterior homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    human mouse all
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    Genomic context

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    See Vax1 in Genome Data Viewer
    Location:
    1q55
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (268310644..268326713, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (258324571..258342396, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (280334897..280338813, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA48 Neighboring gene uncharacterized LOC120100067 Neighboring gene potassium two pore domain channel subfamily K member 18 Neighboring gene solute carrier family 18 member A2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Vax1, a novel homeobox-containing gene, directs development of the basal forebrain and visual system. Hallonet M, et al. Genes Dev, 1999 Dec 1. PMID 10601036, Free PMC Article
    2. Compromised generation of GABAergic interneurons in the brains of Vax1-/- mice. Taglialatela P, et al. Development, 2004 Sep. PMID 15280216
    3. The homeodomain protein vax1 is required for axon guidance and major tract formation in the developing forebrain. Bertuzzi S, et al. Genes Dev, 1999 Dec 1. PMID 10601035, Free PMC Article
    4. Defective postnatal neurogenesis and disorganization of the rostral migratory stream in absence of the Vax1 homeobox gene. Soria JM, et al. J Neurosci, 2004 Dec 8. PMID 15590934, Free PMC Article
    5. Vax genes ventralize the embryonic eye. Mui SH, et al. Genes Dev, 2005 May 15. PMID 15905411, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity 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 DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    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 intronic transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin 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
    acts_upstream_of_or_within astrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within axon guidance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in brain development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within brain development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within camera-type eye development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in central nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within central nervous system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of neuroblast proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within nervous system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of neuroblast proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuroepithelial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within neuron migration 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 roof of mouth development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within skeletal muscle cell differentiation 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
    		  

    General protein information

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    Preferred Names
    ventral anterior homeobox 1
    Names
    ventral anterior homeobox containing gene 1

    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_022636.1 → NP_072158.1  ventral anterior homeobox 1

      See identical proteins and their annotated locations for NP_072158.1

      Status: PROVISIONAL

      Source sequence(s)
      AF113515
      UniProtKB/Swiss-Prot
      Q9JM00
      UniProtKB/TrEMBL
      A6JI80
      Related
      ENSRNOP00000011743.1, ENSRNOT00000011743.4
      Conserved Domains (1) summary
      pfam00046
      Location:103 → 156
      Homeobox; Homeobox 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
      268310644..268326713 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089683.2 → XP_038945611.1  ventral anterior homeobox 1 isoform X1

      Conserved Domains (1) summary
      pfam00046
      Location:25 → 79
      Homeobox; Homeobox domain

    2. XM_039089676.2 → XP_038945604.1  ventral anterior homeobox 1 isoform X1

      Conserved Domains (1) summary
      pfam00046
      Location:25 → 79
      Homeobox; Homeobox domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JM00.1 GenPept UniProtKB/Swiss-Prot:Q9JM00

    Gene LinkOut

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

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