ref-1 Regulator of fusion ref-1 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: ref-1
Official Full Name: Regulator of fusion ref-1
Primary source: WormBase:WBGene00004334
Locus tag: CELE_T01E8.2
See related: AllianceGenome:WB:WBGene00004334
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 epidermal cell fate specification; negative regulation of transcription by RNA polymerase II; and nematode male tail tip morphogenesis. Located in nucleus. Is expressed in several structures, including embryonic cell; hypodermis; mc3V; pharyngeal cell; and pharyngeal-intestinal valve. Orthologous to human HES5 (hes family bHLH transcription factor 5). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See ref-1 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 4

Sequence:: Chromosome: II; NC_003280.10 (10218471..10220022)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

identify an enhancer in the promoter of ref-1 which promotes Notch-dependent expression in mesodermal and endodermal cells
Title: Notch-GATA synergy promotes endoderm-specific expression of ref-1 in C. elegans.
Inhibition of export by NXF-1 depends upon the TRE, CeNXF-2, CeREF-1, and CeREF-2.
Title: NXF-2, REF-1, and REF-2 affect the choice of nuclear export pathway for tra-2 mRNA in C. elegans.
data show that changes in liver expression of DNA polymerase beta, Ref-1, proliferating cell nuclear antigen, and Bax are associated with peroxisome proliferator-induced carcinogenesis
Title: Hepatic expression of polymerase beta, Ref-1, PCNA, and Bax in WY 14,643-exposed rats and hamsters.
REF-1 functions in both Notch-dependent and independent pathways to regulate multiple developmental decisions in different neuronal sublineages
Title: Regulation of neuronal lineage decisions by the HES-related bHLH protein REF-1.

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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

T01E8.2 (e-PCR)
- UniSTS:307888

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 dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in anterior/posterior pattern specification	IBA Inferred from Biological aspect of Ancestor more info
involved_in epidermal cell fate specification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nematode male tail tip morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in neuron development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of neurogenesis	IBA Inferred from Biological aspect of Ancestor more info
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

General protein information

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Preferred Names: Regulator of fusion ref-1

NP_496204.1

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_003280.10 Reference assembly

Range

10218471..10220022

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_063803.6 → NP_496204.1 Regulator of fusion ref-1 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_496204.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EEQ5

Conserved Domains (1) summary

smart00353
Location:20 → 66

HLH; helix loop helix domain