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    cog-1 Homeobox domain-containing protein [ Caenorhabditis elegans ]

    Gene ID: 175149, updated on 9-Dec-2024

    Summary

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    Official Symbol
    cog-1
    Official Full Name
    Homeobox domain-containing protein
    Primary source
    WormBase:WBGene00000584
    Locus tag
    CELE_R03C1.3
    See related
    AllianceGenome:WB:WBGene00000584
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Enables DNA-binding transcription factor binding activity. Involved in several processes, including determination of left/right symmetry; neuron development involved in amphid sensory organ development; and regulation of gene expression. Predicted to be active in nucleus. Is expressed in several structures, including anal sphincter muscle; egg-laying apparatus; ganglia; male-specific anatomical entity; and spermathecal-uterine junction. Human ortholog(s) of this gene implicated in spastic ataxia 8. Orthologous to several human genes including NKX6-1 (NK6 homeobox 1) and NKX6-2 (NK6 homeobox 2). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See cog-1 in Genome Data Viewer
    Location:
    chromosome: II
    Exon count:
    4
    Sequence:
    Chromosome: II; NC_003280.10 (14902493..14907533)

    Chromosome II - NC_003280.10Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene Cell wall protein DAN4 Neighboring gene Phosphodiesterase;putative 3',5'-cyclic phosphodiesterase pde-3 Neighboring gene ncRNA Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003280.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Caenorhabditis elegans cog-1 locus encodes GTX/Nkx6.1 homeodomain proteins and regulates multiple aspects of reproductive system development. Palmer RE, et al. Dev Biol, 2002 Dec 15. PMID 12482710
    2. Molecular architecture of a miRNA-regulated 3' UTR. Didiano D, et al. RNA, 2008 Jul. PMID 18463285, Free PMC Article
    3. Transcription factor modularity in a gene-centered C. elegans core neuronal protein-DNA interaction network. Vermeirssen V, et al. Genome Res, 2007 Jul. PMID 17513831, Free PMC Article
    4. Cis-regulatory mutations in the Caenorhabditis elegans homeobox gene locus cog-1 affect neuronal development. O'Meara MM, et al. Genetics, 2009 Apr. PMID 19189954, Free PMC Article
    5. A novel function for the DEAD-box RNA helicase DDX-23 in primary microRNA processing in Caenorhabditis elegans. Chu YD, et al. Dev Biol, 2016 Jan 15. PMID 26601717

    See all (51) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Cis-regulatory mutations in the Caenorhabditis elegans homeobox gene locus cog-1 affect neuronal development.
      Title: Cis-regulatory mutations in the Caenorhabditis elegans homeobox gene locus cog-1 affect neuronal development.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    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 factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in determination of left/right symmetry IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in gonad development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in neuron development involved in amphid sensory organ development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in pattern specification process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in positive regulation of gene expression 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
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Homeobox domain-containing protein
    NP_001022264.1
    • Confirmed by transcript evidence
    NP_001367047.1
    • Confirmed by transcript evidence

    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_003280.10 Reference assembly

      Range
      14902493..14907533
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001027093.4 → NP_001022264.1  Homeobox domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001022264.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EGE2
      Conserved Domains (1) summary
      pfam00046
      Location:172 → 226
      Homeobox; Homeobox domain

    2. NM_001381667.2 → NP_001367047.1  Homeobox domain-containing protein [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EGF2
      Conserved Domains (1) summary
      pfam00046
      Location:22 → 76
      Homeobox; Homeobox domain
    Nucleotide Protein
    Heading Accession and Version

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