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    Vsx1 Visual system homeobox 1 [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 31470, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Vsx1provided by FlyBase
    Official Full Name
    Visual system homeobox 1provided by FlyBase
    Primary source
    FLYBASE:FBgn0263511
    Locus tag
    Dmel_CG4136
    See related
    AllianceGenome:FB:FBgn0263511
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Drosophila melanogaster
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
    Also known as
    CG4136; Chx1; dChx1; Dchx1; DChx1; Dmel\CG4136; dVsx1; DVSX1; lincRNA.S8688; Vsx; Vsx-1
    Summary
    Predicted to enable DNA-binding transcription factor activity and sequence-specific double-stranded DNA binding activity. Involved in insect visual primordium development and positive regulation of neural precursor cell proliferation. Located in nucleus. Is expressed in several structures, including adult optic lobe neurons; cell body rind region; ganglia; larval neurons; and mushroom body. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See Vsx1 in Genome Data Viewer
    Location:
    5A6-5A7; 1-12 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) X NC_004354.4 (5594255..5612865)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) X NC_004354.3 (5488288..5506898)

    Chromosome X - NC_004354.4Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Visual system homeobox 2 Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein

    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. Spatio-temporal pattern of neuronal differentiation in the Drosophila visual system: A user's guide to the dynamic morphology of the developing optic lobe. Ngo KT, et al. Dev Biol, 2017 Aug 1. PMID 28533086, Free PMC Article
    2. Identification of enhancers that drive the spatially restricted expression of Vsx1 and Rx in the outer proliferation center of the developing Drosophila optic lobe. Islam IM, et al. Genome, 2021 Feb. PMID 33054400
    3. Focusing transgene expression in Drosophila by coupling Gal4 with a novel split-LexA expression system. Ting CY, et al. Genetics, 2011 May. PMID 21368278, Free PMC Article
    4. Optix defines a neuroepithelial compartment in the optic lobe of the Drosophila brain. Gold KS, et al. Neural Dev, 2014 Jul 29. PMID 25074684, Free PMC Article
    5. Generating neural diversity through spatial and temporal patterning. Sen SQ. Semin Cell Dev Biol, 2023 Jun. PMID 35738966

    See all (66) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Identification of enhancers that drive the spatially restricted expression of Vsx1 and Rx in the outer proliferation center of the developing Drosophila optic lobe.
      Title: Identification of enhancers that drive the spatially restricted expression of Vsx1 and Rx in the outer proliferation center of the developing Drosophila optic lobe.
    2. dVsx1 (CG4136) and dVsx2 (CG33980) are coexpressed in a subset of neurons in the medulla, including the transmedullary neurons that transmit visual information from photoreceptors to deeper layers of the visual system.
      Title: Conserved role of the Vsx genes supports a monophyletic origin for bilaterian visual systems.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by FlyBase

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sequence-specific double-stranded DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in insect visual primordium development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in positive regulation of neural precursor cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    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

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    Preferred Names
    visual system homeobox 1
    Names
    CG4136-PA
    CG4136-PB
    Chx1
    Vsx1-PA
    Vsx1-PB
    visual system homeobox 1 ortholog

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_004354.4 Reference assembly

      Range
      5594255..5612865
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001297969.1 → NP_001284898.1  visual system homeobox 1, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001284898.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q5U1D9, Q9W4B2
      Conserved Domains (1) summary
      pfam00046
      Location:399 → 451
      Homeobox; Homeobox domain

    2. NM_132004.3 → NP_572232.2  visual system homeobox 1, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_572232.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q5U1D9, Q9W4B2
      Related
      FBpp0070747
      Conserved Domains (1) summary
      pfam00046
      Location:399 → 451
      Homeobox; Homeobox domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5U1D9 Q5U1D9
    Q8T990 Q8T990
    Q9W4B2 Q9W4B2

    Gene LinkOut

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

    Other Literature Sources
    Molecular Biology Databases
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