unc-39 Homeobox protein unc-39 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: unc-39
Official Full Name: Homeobox protein unc-39
Primary source: WormBase:WBGene00006775
Locus tag: CELE_F56A12.1
See related: AllianceGenome:WB:WBGene00006775
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 egg-laying behavior; generation of neurons; and mesodermal cell migration. Located in nucleus. Is expressed in several structures, including M cell; coelomocyte; neuroblasts; neurons; and somatic gonad precursor. Used to study branchiootorenal syndrome and myotonic dystrophy type 1. Human ortholog(s) of this gene implicated in branchiootorenal syndrome 2. Orthologous to human SIX4 (SIX homeobox 4) and SIX5 (SIX homeobox 5). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See unc-39 in Genome Data Viewer

Location:: chromosome: V

Exon count:: 4

Sequence:: Chromosome: V; NC_003283.11 (14373074..14375881)

Chromosome V - NC_003283.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Caenorhabditis elegans sine oculis/SIX-type homeobox genes act as homeotic switches to define neuronal subtype identities.
Title: Caenorhabditis elegans sine oculis/SIX-type homeobox genes act as homeotic switches to define neuronal subtype identities.

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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

F56A12.1 (e-PCR)
- UniSTS:319417

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, 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 axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in egg-laying behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in locomotion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mesodermal cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of locomotion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of nematode male tail tip morphogenesis	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

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
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: Homeobox protein unc-39

NP_506563.2

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_003283.11 Reference assembly

Range

14373074..14375881

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_074162.3 → NP_506563.2 Homeobox protein unc-39 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_506563.2

Status: REVIEWED

UniProtKB/Swiss-Prot

O17894

Conserved Domains (2) summary

cd00086
Location:222 → 277

homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

pfam16878
Location:97 → 211

SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain