cwo clockwork orange [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: cwoprovided by FlyBase
Official Full Name: clockwork orangeprovided by FlyBase
Primary source: FLYBASE:FBgn0259938
Locus tag: Dmel_CG17100
See related: AllianceGenome:FB:FBgn0259938
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: AAF24476.1; bHLHe49; CG17100; Cwo; CWO; dcwo; Dmel\CG17100; GM05287; mel_cwo
Summary: Enables DNA-binding transcription factor activity. Involved in dendrite morphogenesis; regulation of circadian rhythm; and regulation of gene expression. Located in nucleus. Is expressed in several structures, including Malpighian tubule primordium; embryonic/larval midgut primordium; gut section; head; and pacemaker neurons. Orthologous to human HELT (helt bHLH transcription factor). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 86B3-86B3; 3-49 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	3R	NT_033777.3 (10388258..10400752)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	3R	NT_033777.2 (6213980..6226474)

Chromosome 3R - NT_033777.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Sugar-responsive inhibition of Myc-dependent ribosome biogenesis by Clockwork orange.
Title: Sugar-responsive inhibition of Myc-dependent ribosome biogenesis by Clockwork orange.
Here we demonstrate that the transcription factor CLOCKWORK ORANGE (CWO) antagonizes CLK-CYC E-box binding, thus enhancing the removal of CLK-CYC from E-boxes to maintain transcriptional repression. This process requires PER, which suggests that PER-TIM and CWO cooperate to maintain a transcriptionally repressed state by removing CLK-CYC from E-boxes
Title: CLOCKWORK ORANGE Enhances PERIOD Mediated Rhythms in Transcriptional Repression by Antagonizing E-box Binding by CLOCK-CYCLE.
Results indicate that, in vivo, clockwork orange (CWO) modulates clock gene expression through both repressor and activator transcriptional functions.
Title: The clockwork orange Drosophila protein functions as both an activator and a repressor of clock gene expression.
identification of novel clock gene candidates including clockwork orange (cwo), a transcriptional repressor belonging to the basic helix-loop-helix ORANGE family[
Title: A functional genomics strategy reveals clockwork orange as a transcriptional regulator in the Drosophila circadian clock.
findings suggest that Clockwork Orange (CWO) acts preferentially in the late night to help terminate CLK-CYC-mediated transcription of direct target genes including cwo itself
Title: Clockwork Orange is a transcriptional repressor and a new Drosophila circadian pacemaker component.

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Pathways from PubChem

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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

Dm1569 (e-PCR)
- UniSTS:77022

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay 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 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 circadian regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in circadian rhythm	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in peripheral nervous system development	TAS Traceable Author Statement 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 circadian rhythm	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of circadian rhythm	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

General protein information

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Preferred Names: clockwork orange

Names: CG17100-PA; CG17100-PB; CG17100-PC; CLOCKWORK ORANGE; clockworkorange; cwo-PA; cwo-PB; cwo-PC; stich

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

NT_033777.3 Reference assembly

Range

10388258..10400752

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001260096.2 → NP_001247025.1 clockwork orange, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001247025.1

Status: REVIEWED

UniProtKB/TrEMBL

Q8MRI9

Conserved Domains (2) summary

smart00511
Location:49 → 91

ORANGE; Orange domain

pfam00010
Location:1 → 41

HLH; Helix-loop-helix DNA-binding domain
NM_080036.3 → NP_524775.1 clockwork orange, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_524775.1

Status: REVIEWED

UniProtKB/Swiss-Prot

C8VV96, Q9U450, Q9VGZ5

UniProtKB/TrEMBL

A0AVW7

Related

FBpp0081723

Conserved Domains (2) summary

smart00511
Location:126 → 168

ORANGE; Orange domain

pfam00010
Location:66 → 118

HLH; Helix-loop-helix DNA-binding domain
NM_001260095.2 → NP_001247024.1 clockwork orange, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001247024.1

Status: REVIEWED

UniProtKB/TrEMBL

Q8MRI9

Conserved Domains (2) summary

smart00511
Location:49 → 91

ORANGE; Orange domain

pfam00010
Location:1 → 41

HLH; Helix-loop-helix DNA-binding domain