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

Gene ID: 175638, updated on 4-Jan-2025

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, Jan 2025]
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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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