vab-3 Paired box protein 6 homolog [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: vab-3
Official Full Name: Paired box protein 6 homolog
Primary source: WormBase:WBGene00006870
Locus tag: CELE_F14F3.1
See related: AllianceGenome:WB:WBGene00006870
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: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including male anatomical structure morphogenesis; negative regulation of distal tip cell migration; and positive regulation of glial cell differentiation. Located in cytoplasm and nucleus. Is expressed in several structures, including B.a; distal tip cell; head muscle; hypodermis; and nervous system. Human ortholog(s) of this gene implicated in bilateral optic nerve hypoplasia; eye disease (multiple); glucose intolerance; and paranoid schizophrenia. Orthologous to human PAX6 (paired box 6). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See vab-3 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 14

Sequence:: Chromosome: X; NC_003284.9 (10499890..10519579)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

eya-1 and pax-6/Pax6 mutants showed a strong genetic interaction for larval viability and embryonic anterior morphogenesis.
Title: The C. elegans eyes absent ortholog EYA-1 is required for tissue differentiation and plays partially redundant roles with PAX-6.
demonstrate ventral- and dorsal-restricted roles for the mls-2/Nkx/Hmx and vab-3/Pax6/Pax7 genes, respectively, in CEPsh glia differentiation and expression of the genes hlh-17/Olig and ptr-10/Patched-related
Title: mls-2 and vab-3 Control glia development, hlh-17/Olig expression and glia-dependent neurite extension in C. elegans.
analysis of multiple genetic pathways that act to restrict pax-6/vab-3 gene expression to the sensory organ precursor cells
Title: Positive and negative regulatory inputs restrict pax-6/vab-3 transcription to sensory organ precursors in Caenorhabditis elegans.
Transcriptional control of migration termination provides a new mechanism for regulation of morphogenesis and organ size by vab-3.
Title: Control of C. elegans hermaphrodite gonad size and shape by vab-3/Pax6-mediated regulation of integrin receptors.
Results indicate that MAB-18 and CEH-14 interact to repress col-43 expression in sth-1-expressing tissues.
Title: The homeoproteins MAB-18 and CEH-14 insulate the dauer collagen gene col-43 from activation by the adjacent promoter of the Spermatheca gene sth-1 in Caenorhabditis elegans.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

F14F3.1 (e-PCR)
- UniSTS:322060

Homology

Orthologs from OrthoDB

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	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in anterior/posterior pattern specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell fate commitment	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of distal tip cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nematode male tail mating organ morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nematode male tail tip morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of glial cell differentiation	IMP Inferred from Mutant Phenotype 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 DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in regulation of cell adhesion	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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sensory organ development	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in intracellular organelle	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: Paired box protein 6 homolog

NP_001024570.1

Confirmed by transcript evidence

NP_001024571.1

Confirmed by transcript evidence

NP_001024572.1

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

NC_003284.9 Reference assembly

Range

10499890..10519579

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001029399.4 → NP_001024570.1 Paired box protein 6 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001024570.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EDS1, G5EE71, Q17356, Q95ZV2

Conserved Domains (3) summary

smart00351
Location:5 → 129

PAX; Paired Box domain

COG5576
Location:183 → 293

COG5576; Homeodomain-containing transcription factor [Transcription]

pfam00046
Location:221 → 274

Homeobox; Homeobox domain
NM_001029400.4 → NP_001024571.1 Paired box protein 6 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001024571.1

Status: REVIEWED

UniProtKB/TrEMBL

Q17360

Conserved Domains (1) summary

pfam00046
Location:35 → 88

Homeobox; Homeobox domain
NM_001029401.6 → NP_001024572.1 Paired box protein 6 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001024572.1

Status: REVIEWED

UniProtKB/TrEMBL

Q17360

Conserved Domains (1) summary

pfam00046
Location:62 → 115

Homeobox; Homeobox domain