ct cut [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: ctprovided by FlyBase
Official Full Name: cutprovided by FlyBase
Primary source: FLYBASE:FBgn0004198
Locus tag: Dmel_CG11387
See related: AllianceGenome:FB:FBgn0004198
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: BcDNA:GH10590; CG11387; Ct; CT; Cut; CUT; Dmel\CG11387; kf; l(1)7Ba; l(1)7Bb; l(1)VE614
Summary: Enables transcription cis-regulatory region binding activity. Involved in several processes, including Malpighian tubule bud morphogenesis; formation of a compartment boundary; and imaginal disc-derived appendage morphogenesis. Acts upstream of with a positive effect on dendrite arborization. Located in nucleus. Is expressed in several structures, including Malpighian tubule; adult epithelial cell; antennal lobe projection neurons; embryonic/larval sensory neurons; and ganglia. Used to study cancer and hematologic cancer. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 67. Orthologous to several human genes including CUX2 (cut like homeobox 2). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: 7B4-7B6; 1-20 cM

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	X	NC_004354.4 (7608428..7678859)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	X	NC_004354.3 (7503181..7572892)

Chromosome X - NC_004354.4 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?

inducing expression of Cut in stage 14 follicle cells is sufficient to inhibit follicle rupture and ovulation through its negative regulation of Hnt and promotion of Ttk69 expression.
Title: Downregulation of homeodomain protein Cut is essential for Drosophila follicle maturation and ovulation.
These analyses identified a host of putative Cut and/or Knot effector molecules, and a subset of these putative TF targets converge on modulating dendritic cytoskeletal architecture, which are grouped into three major phenotypic categories, based upon neuromorphometric analyses: complexity enhancer, complexity shifter, and complexity suppressor
Title: Dendritic Cytoskeletal Architecture Is Modulated by Combinatorial Transcriptional Regulation in Drosophila melanogaster.
and ecdysone signaling pathways synergistically regulate Cut expression for proper DV boundary formation in the wing disc
Title: The Ecdysone and Notch Pathways Synergistically Regulate Cut at the Dorsal-Ventral Boundary in Drosophila Wing Discs.
Loss of Ct and Hth in the antenna disc resulted in ectopic eye development in the antenna.
Title: Segregation of eye and antenna fates maintained by mutual antagonism in Drosophila.
Drosophila transcription factor Cut coordinately controls differentiation and repression of apoptosis via direct regulation of the pro-apoptotic gene
Title: Antagonistic regulation of apoptosis and differentiation by the Cut transcription factor represents a tumor-suppressing mechanism in Drosophila.
Turtle is downstream effector of Cut-mediated regulation of da neuron dendrite morphology.
Title: Turtle functions downstream of Cut in differentially regulating class specific dendrite morphogenesis in Drosophila.
Study of distant interactions of LCR from the locus CUT.
Title: Study of distant interactions of LCR from the Drosophila melanogaster locus CUT.
Opposing interactions between Drosophila cut and the C/EBP encoded by slow border cells direct apical constriction and epithelial invagination
Title: Opposing interactions between Drosophila cut and the C/EBP encoded by slow border cells direct apical constriction and epithelial invagination.
cut protein acts in parallel to atonal, spalt-major and spalt-related transcription factors for differentiation of Johnston's organ of Drosophila antennae.
Title: Cut mutant Drosophila auditory organs differentiate abnormally and degenerate.
cut control the dendrite cytoskeleton and synergize to define final arbor shape.
Title: Knot/Collier and cut control different aspects of dendrite cytoskeleton and synergize to define final arbor shape.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in Malpighian tubule bud morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in Malpighian tubule morphogenesis	TAS Traceable Author Statement more info	PubMed
involved_in antennal development	IEP Inferred from Expression Pattern more info	PubMed
involved_in antennal development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in antennal joint development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in central nervous system development	TAS Traceable Author Statement more info	PubMed
involved_in compound eye morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_positive_effect dendrite arborization	IGI Inferred from Genetic Interaction more info	PubMed
involved_in dendrite guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendrite morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendrite morphogenesis	TAS Traceable Author Statement more info	PubMed
involved_in female gonad development	TAS Traceable Author Statement more info	PubMed
involved_in formation of a compartment boundary	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in imaginal disc-derived wing margin morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in oogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in open tracheal system development	TAS Traceable Author Statement 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	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 sensory perception of sound	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spiracle morphogenesis, open tracheal system	IMP Inferred from Mutant Phenotype more info	PubMed

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: cut

Names: CG11387-PA; CG11387-PD; CG11387-PE; Cut; ct-PA; ct-PD; ct-PE; kinked-femur

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_004354.4 Reference assembly

Range

7608428..7678859

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001272381.2 → NP_001259310.1 cut, isoform E [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001259310.1

Status: REVIEWED

UniProtKB/TrEMBL

M9PGW9

Conserved Domains (2) summary

pfam00046
Location:1748 → 1800

Homeobox; Homeobox domain

pfam02376
Location:1334 → 1410

CUT; CUT domain
NM_080025.2 → NP_524764.1 cut, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_524764.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P10180, Q9W3Q6

Related

FBpp0071026

Conserved Domains (2) summary

pfam00046
Location:1749 → 1801

Homeobox; Homeobox domain

pfam02376
Location:1335 → 1411

CUT; CUT domain
NM_001258636.2 → NP_001245565.1 cut, isoform D [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245565.1

Status: REVIEWED

UniProtKB/TrEMBL

M9NEA5

Conserved Domains (2) summary

pfam00046
Location:1739 → 1791

Homeobox; Homeobox domain

pfam02376
Location:1325 → 1401

CUT; CUT domain