hlh-6 Helix-loop-helix protein 6 [Caenorhabditis elegans] - Gene

Summary

Go to the top of the page Help

Official Symbol: hlh-6
Official Full Name: Helix-loop-helix protein 6
Primary source: WormBase:WBGene00001952
Locus tag: CELE_T15H9.3
See related: AllianceGenome:WB:WBGene00001952
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. Involved in several processes, including nematode pharyngeal gland morphogenesis; positive regulation of nematode pharynx morphogenesis; and regulation of DNA-templated transcription. Located in cell projection and nucleus. Is expressed in pharyngeal gland cell. Orthologous to several human genes including ASCL3 (achaete-scute family bHLH transcription factor 3). [provided by Alliance of Genome Resources, Dec 2024]
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help

See hlh-6 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 4

Sequence:: Chromosome: II; NC_003280.10 (9613463..9614828, complement)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Expression of the gland-expressed genes rely on cis-elements and trans-acting factor(s) other than HLH-6 and HRL3.
Title: Transcriptional regulation of HLH-6-independent and subtype-specific genes expressed in the Caenorhabditis elegans pharyngeal glands.
Regulation of hlh-6 by LAG-1 is strictly negative: removal of HRL1 or LAG-1 regulation results in ectopic expression of hlh-6, but does not affect expression in pharyngeal glands.
Title: The CSL transcription factor LAG-1 directly represses hlh-6 expression in C. elegans.
Pharyngeal pumping in hlh-6 mutants is normal, but hlh-6 mutants lack expression of a class of mucin-related proteins that are normally secreted by pharyngeal glands and line the pharyngeal cuticle.
Title: The HLH-6 transcription factor regulates C. elegans pharyngeal gland development and function.
The experiments identified three distinct regulatory elements required for hlh-6 expression: a PHA-4-binding site and two new elements, HRL1 and HRL2 (for hlh-6 regulatory elements 1 and 2).
Title: Gland-specific expression of C. elegans hlh-6 requires the combinatorial action of three distinct promoter elements.

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

T15H9.3 (e-PCR)
- UniSTS:318492

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	IDA Inferred from Direct Assay more info	PubMed
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in nematode pharyngeal gland morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pharynx development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of eating behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of nematode pharynx morphogenesis	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

Component	Evidence Code	Pubs
located_in cell projection	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: Helix-loop-helix protein 6

NP_496070.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003280.10 Reference assembly

Range

9613463..9614828 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_063669.2 → NP_496070.1 Helix-loop-helix protein 6 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_496070.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q10007

Conserved Domains (1) summary

smart00353
Location:179 → 231

HLH; helix loop helix domain