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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
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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

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