ci cubitus interruptus [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: ciprovided by FlyBase
Official Full Name: cubitus interruptusprovided by FlyBase
Primary source: FLYBASE:FBgn0004859
Locus tag: Dmel_CG2125
See related: AllianceGenome:FB:FBgn0004859
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: Ce; CG2125; Ci; CI; ci-D; Ci/Gli; Ci/GLI; ci155; Ci155; ciA; ciD; CiD; CID; ciR; ci[D]; Ci[D]; d Ci; Dmel\CG2125; Gli; l(4)102ABc; l(4)13; l(4)17; Siah
Summary: Enables several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; cAMP response element binding protein binding activity; and protein homodimerization activity. Involved in several processes, including negative regulation of hippo signaling; regionalization; and regulation of transcription by RNA polymerase II. Located in cytosol and nucleus. Part of Hedgehog signaling complex. Is expressed in several structures, including anlage in statu nascendi; developmental compartment; germ layer; head epidermis primordium; and imaginal disc. Used to study primary bacterial infectious disease. Human ortholog(s) of this gene implicated in several diseases, including Culler-Jones syndrome; Pallister-Hall syndrome; anodontia; holoprosencephaly 9; and synostosis (multiple). Orthologous to several human genes including GLI2 (GLI family zinc finger 2) and GLI3 (GLI family zinc finger 3). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 101F1-101F1; 4-0 cM

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	4	NC_004353.4 (47710..57041, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	4	NC_004353.3 (68336..77667, complement)

Chromosome 4 - NC_004353.4 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?

The chromodomain is required for Pc-mediated Ci transcription.
Title: Distinct functions of polycomb group proteins in regulating Ci transcription in developing Drosophila.
Ci is transcriptionally regulated by Fsh-Pc-Sce complex.
Title: Fsh-Pc-Sce complex mediates active transcription of Cubitus interruptus (Ci).
UbcD1 regulates Hedgehog signaling by directly modulating Ci ubiquitination and processing.
Title: UbcD1 regulates Hedgehog signaling by directly modulating Ci ubiquitination and processing.
Study indicated that Sqh is crucial to regulate the stability of the transcription factor Cubitus interruptus (Ci) in Hedgehog (Hh) pathway.
Title: Sqh is involved in the regulation of Ci stability in Hh signaling pathway.
Ci influences the Hippo signaling via interaction with Hpo and Yki.
Title: Ci antagonizes Hippo signaling in the somatic cells of the ovary to drive germline stem cell differentiation.
A Comparison of Ci/Gli Activity as Regulated by Sufu in Drosophila and Mammalian Hedgehog Response
Title: A Comparison of Ci/Gli Activity as Regulated by Sufu in Drosophila and Mammalian Hedgehog Response.
Multisite interaction with Sufu regulates Ci/Gli activity through distinct mechanisms in Hh signal transduction.
Title: Multisite interaction with Sufu regulates Ci/Gli activity through distinct mechanisms in Hh signal transduction.
Ci responds to and relays Hh signals in a precise manner to control target genes expressions and ensures proper Hh signal transduction.
Title: Decoding Ci: from partial degradation to inhibition.
findings reveal a conserved mechanism by which Ci/Gli is stabilized by a deubiquitination enzyme and identify Usp7/HUASP as a critical regulator of Hh signaling
Title: Deubiquitination of Ci/Gli by Usp7/HAUSP Regulates Hedgehog Signaling.
Data show that normal Ci-155 activation by Hh requires Cos2 binding to Fu, supporting the hypothesis that Cos2 mediates the apposition of Fu molecules suitable for cross-phosphorylation and consequent full activation of Fu kinase.
Title: Contributions of Costal 2-Fused interactions to Hedgehog signaling in Drosophila.

Submit: New GeneRIF Correction See all GeneRIFs (37)

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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Homology

NCBI Orthologs

Orthologs from OrthoDB

mobile_element

Loc: c52949-52731 mobile_element_type = transposon:INE-1{}4157
Loc: c53996-52953 mobile_element_type = transposon:1360{}ci[1482]
Loc: c55394-54784 mobile_element_type = transposon:INE-1{}4159

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	NAS Non-traceable Author Statement more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IGI Inferred from Genetic Interaction more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype 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	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables cAMP response element binding protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed
enables protein kinase binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in compound eye morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cuticle pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in genital disc anterior/posterior pattern formation	IEP Inferred from Expression Pattern more info	PubMed
involved_in heart formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in labial disc development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mucosal immune response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of hippo signaling	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 negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of G1/S transition of mitotic cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of epithelial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of cell proliferation involved in compound eye morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of mitotic cell cycle	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 regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in segment polarity determination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in smoothened signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in smoothened signaling pathway	IEP Inferred from Expression Pattern more info	PubMed
involved_in smoothened signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in smoothened signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spiracle morphogenesis, open tracheal system	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in wing disc anterior/posterior pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of Hedgehog signaling complex	IPI Inferred from Physical Interaction more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
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
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed
part_of protein-containing complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: cubitus interruptus

Names: CG2125-PA; CG2125-PB; CG2125-PC; cell; ci-PA; ci-PB; ci-PC; cubitis interruptus; cubitus; cubitus interuptus; cubitus-interruptus; cubitus-interruptus-Dominant; interruptus

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_004353.4 Reference assembly

Range

47710..57041 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001258473.1 → NP_001245402.1 cubitus interruptus, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245402.1

Status: REVIEWED

UniProtKB/TrEMBL

D0IQI9, H9XVL7

Conserved Domains (2) summary

sd00017
Location:401 → 423

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:415 → 442

zf-H2C2_2; Zinc-finger double domain
NM_001258472.2 → NP_001245401.1 cubitus interruptus, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245401.1

Status: REVIEWED

UniProtKB/TrEMBL

H9XVL6

Conserved Domains (2) summary

sd00017
Location:458 → 478

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:503 → 521

zf-H2C2_2; Zinc-finger double domain
NM_079878.5 → NP_524617.3 cubitus interruptus, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_524617.3

Status: REVIEWED

UniProtKB/Swiss-Prot

O18525, P19538, Q8T6T1, Q9V4A8

UniProtKB/TrEMBL

D0IQI9, H5V858

Related

FBpp0088245

Conserved Domains (2) summary

sd00017
Location:519 → 541

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:533 → 560

zf-H2C2_2; Zinc-finger double domain