CTCF CTCF [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: CTCFprovided by FlyBase
Official Full Name: CTCFprovided by FlyBase
Primary source: FLYBASE:FBgn0035769
Locus tag: Dmel_CG8591
See related: AllianceGenome:FB:FBgn0035769
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: CG8591; dCTCF; Dmel\CG8591
Summary: Enables chromatin insulator sequence binding activity and transcription cis-regulatory region binding activity. Involved in several processes, including maintenance of rDNA; regulation of gene expression; and response to ecdysone. Located in nucleus. Is expressed in central brain primordium; embryonic brain; larval ventral nerve cord; organism; and ventral nerve cord primordium. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 21; basal cell carcinoma; female breast cancer; skin melanoma; and skin squamous cell carcinoma. Orthologous to human CTCF (CCCTC-binding factor) and CTCFL (CCCTC-binding factor like). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: 65F6-65F6; 3-20 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	3L	NT_037436.4 (7353578..7356713, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	3L	NT_037436.3 (7346678..7349813, complement)

Chromosome 3L - NT_037436.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality.
Title: The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality.
CTCF, BEAF-32, and CP190 are not required for the establishment of TADs in early Drosophila embryos but have locus-specific roles.
Title: CTCF, BEAF-32, and CP190 are not required for the establishment of TADs in early Drosophila embryos but have locus-specific roles.
Topological screen identifies hundreds of Cp190- and CTCF-dependent Drosophila chromatin insulator elements.
Title: Topological screen identifies hundreds of Cp190- and CTCF-dependent Drosophila chromatin insulator elements.
The Variable CTCF Site from Drosophila melanogaster Ubx Gene is Redundant and Has no Insulator Activity.
Title: The Variable CTCF Site from Drosophila melanogaster Ubx Gene is Redundant and Has no Insulator Activity.
Fragments of the Fab-3 and Fab-4 Boundaries of the Drosophila melanogaster Bithorax Complex That Include CTCF Sites Are not Effective Insulators.
Title: Fragments of the Fab-3 and Fab-4 Boundaries of the Drosophila melanogaster Bithorax Complex That Include CTCF Sites Are not Effective Insulators.
Drosophila architectural protein CTCF is not essential for fly survival and is able to function independently of CP190.
Title: Drosophila architectural protein CTCF is not essential for fly survival and is able to function independently of CP190.
CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions.
Title: CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions.
N-terminal domain of the architectural protein CTCF has similar structural organization and ability to self-association in bilaterian organisms.
Title: N-terminal domain of the architectural protein CTCF has similar structural organization and ability to self-association in bilaterian organisms.
Results indicate that loss of Drosophila CTCF is not accompanied by widespread effects on gene expression, which may be due to redundant functions with other Insulator binding proteins.
Title: The Insulator Protein CTCF Is Required for Correct Hox Gene Expression, but Not for Embryonic Development in Drosophila.
CTCF role in the decompaction of condensed bands in the Drosophila melanogaster polytene chromosomes and replication timing
Title: Tethering of CHROMATOR and dCTCF proteins results in decompaction of condensed bands in the Drosophila melanogaster polytene chromosomes but does not affect their transcription and replication timing.

Submit: New GeneRIF Correction See all GeneRIFs (21)

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	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	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 chromatin insulator sequence binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction 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 genomic imprinting	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in maintenance of rDNA	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to ecdysone	IDA Inferred from Direct Assay more info	PubMed
involved_in segment specification	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: CTCF

Names: CCCTC-binding factor; CG8591-PA; CTCF-PA

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_037436.4 Reference assembly

Range

7353578..7356713 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_139852.4 → NP_648109.1 CTCF [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_648109.1

Status: REVIEWED

UniProtKB/TrEMBL

Q8TA44, Q961N1, Q9VS55

Related

FBpp0076588

Conserved Domains (6) summary

COG5048
Location:321 → 621

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:381 → 401

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:496 → 516

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:587 → 609

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:422 → 446

zf-H2C2_2; Zinc-finger double domain

pfam16620
Location:116 → 206

23ISL; Unstructured linker between I-set domains 2 and 3 on MYLCK