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    pal-1 Homeobox protein pal-1 [ Caenorhabditis elegans ]

    Gene ID: 175638, updated on 9-Dec-2024

    Summary

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    Official Symbol
    pal-1
    Official Full Name
    Homeobox protein pal-1
    Primary source
    WormBase:WBGene00003912
    Locus tag
    CELE_C38D4.6
    See related
    AllianceGenome:WB:WBGene00003912
    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 activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in several processes, including ectodermal cell fate commitment; muscle cell fate commitment; and positive regulation of DNA-templated transcription. Located in condensed nuclear chromosome. Is expressed in several structures, including enteric muscle; oocyte; rectal epithelial cell; seam cell; and tail spike. Orthologous to several human genes including CDX1 (caudal type homeobox 1) and CDX2 (caudal type homeobox 2). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See pal-1 in Genome Data Viewer
    Location:
    chromosome: III
    Exon count:
    7
    Sequence:
    Chromosome: III; NC_003281.10 (4804688..4809553, complement)

    Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene HTH OST-type domain-containing protein Neighboring gene Rho-GAP domain-containing protein;WW domain-containing protein tag-325 Neighboring gene rRNA N(6)-adenosine-methyltransferase metl-5 Neighboring gene ncRNA Neighboring gene C2H2-type domain-containing protein Neighboring gene ADP-ribosylation factor-like protein 6

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003281.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Caudal-dependent cell positioning directs morphogenesis of the C. elegans ventral epidermis. Gilbert SPR, et al. Dev Biol, 2020 May 1. PMID 31923384, Free PMC Article
    2. Network inference of pal-1 lineage-specific regulation in the C. elegans embryo by structural equation modeling. Aburatani S. Bioinformation, 2012. PMID 23055605, Free PMC Article
    3. [Evolutional principles of homology in regulatory genes of myogenesis]. Ozerniuk ID, et al. Izv Akad Nauk Ser Biol, 2012 Jul-Aug. PMID 22988754
    4. Zygotic expression of the caudal homolog pal-1 is required for posterior patterning in Caenorhabditis elegans embryogenesis. Edgar LG, et al. Dev Biol, 2001 Jan 1. PMID 11133155
    5. Pristionchus pacificus. Sommer RJ. WormBook, 2006 Aug 14. PMID 18050490, Free PMC Article

    See all (121) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Caudal-dependent cell positioning directs morphogenesis of the C. elegans ventral epidermis.
      Title: Caudal-dependent cell positioning directs morphogenesis of the C. elegans ventral epidermis.
    2. PUF-8 binds in vitro to specific sequences within pal-1 3' UTR that are critical for post-transcriptional suppression in germline stem cells.
      Title: PUF-8 suppresses the somatic transcription factor PAL-1 expression in C. elegans germline stem cells.
    3. hlh-1 is indeed a direct target of PAL-1 in the posterior embryonic C. elegans muscle lineages, defining a novel in vivo binding site for this crucial developmental regulator
      Title: Caudal-like PAL-1 directly activates the bodywall muscle module regulator hlh-1 in C. elegans to initiate the embryonic muscle gene regulatory network.
    4. a developmental switch in the translational control of C. elegans PAL-1 is mediated by the STAR/Maxi-KH domain protein GLD-1
      Title: The STAR/Maxi-KH domain protein GLD-1 mediates a developmental switch in the translational control of C. elegans PAL-1.
    5. PAL-1 specifies the identity and maintains the development of the multipotent C blastomere lineage in the C. elegans embryo.
      Title: The homeodomain protein PAL-1 specifies a lineage-specific regulatory network in the C. elegans embryo.
    6. The Wnt effector POP-1 and the PAL-1/Caudal homeoprotein collaborate with SKN-1 to activate C. elegans endoderm development.
      Title: The Wnt effector POP-1 and the PAL-1/Caudal homeoprotein collaborate with SKN-1 to activate C. elegans endoderm 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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in ectodermal cell fate commitment IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in embryo development ending in birth or egg hatching IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in embryonic pattern specification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in muscle cell fate commitment IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of miRNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in 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 IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromosome, centromeric region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in condensed nuclear chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in kinetochore IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Homeobox protein pal-1
    NP_001021209.1
    • Confirmed by transcript evidence
    NP_001254921.1
    • Confirmed by transcript evidence
    NP_001379426.1
    • 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_003281.10 Reference assembly

      Range
      4804688..4809553 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001267992.4 → NP_001254921.1  Homeobox protein pal-1 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001254921.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P34766
      Conserved Domains (1) summary
      pfam00046
      Location:162 → 214
      Homeobox; Homeobox domain

    2. NM_001393326.1 → NP_001379426.1  Homeobox protein pal-1 [Caenorhabditis elegans]

      Status: REVIEWED

      Conserved Domains (1) summary
      pfam00046
      Location:208 → 261
      Homeobox; Homeobox domain

    3. NM_001026038.7 → NP_001021209.1  Homeobox protein pal-1 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001021209.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      C9IY23, P34766, Q18513, Q65ZB9
      Conserved Domains (1) summary
      pfam00046
      Location:210 → 262
      Homeobox; Homeobox domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P34766.2

    Gene LinkOut

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