FlyBase Gene Report: Dmel\cyc

General Information

Symbol

Dmel\cyc

Species

D. melanogaster

Name

cycle

Annotation Symbol

CG8727

Feature Type

protein_coding_gene

FlyBase ID

FBgn0023094

Gene Model Status

Current

Stock Availability

13 publicly available

Gene Snapshot

cycle (cyc) is a circadian clock gene. It encodes a transcription factor of the BHLH-PAS family and activates transcription of key clock genes as well as downstream clock-regulated genes. [Date last reviewed: 2018-09-20]

Other Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

dbmal1, Bmal1, dCYC

Key Links

Genomic Location

Cytogenetic map

76C6-76C6

Sequence location

3L:19,813,770..19,815,938 [-]

Recombination map

3-46

Sequence

Get Decorated FASTA

Genomic Maps

GBrowse JBrowse

Help me choose

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

GO Summary Ribbons

[Detailed GO annotations]

Gene Group (FlyBase)

BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Molecular Function (GO)
[Detailed GO annotations]

Experimental Evidence

DNA binding; protein heterodimerization activity; contributes_to RNA polymerase II regulatory region sequence-specific DNA binding

Predictions / Assertions

DNA-binding transcription factor activity; protein heterodimerization activity

Summaries

Gene Group (FlyBase)

BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTORS -: Basic helix-loop-helix (bHLH) transcription factors are sequence-specific DNA-binding proteins that regulate transcription. They are characterized by a 60 amino acid region comprising a basic DNA binding domain followed by a HLH motif formed from two amphipathic α-helices connected by a loop. bHLH transcription factors form homo- and hetero-dimeric complexes, which bind to a E box consensus sequence. (Adapted from PMID:15186484).

Protein Function (UniProtKB)

Putative transcription factor involved in the generation of biological rhythms. Activates cycling transcription of Period (PER) and Timeless (TIM) by binding to the E-box (5'-CACGTG-3') present in their promoters.

(UniProt, O61734)

Summary (Interactive Fly)

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\cyc or the JBrowse view of Dmel\cyc for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Comments on Gene Model

Gene model reviewed during 5.45

Gene model reviewed during 5.43

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.46

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

cyc-RA

FBtr0074924

NM_079444

1625

413

Additional Transcript Data and Comments

Reported size (kB)

1.7 (northern blot)

(Rutila et al., 1998)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

cyc-PA

FBpp0074693

47.6

413

7.71

NP_524168

AAF49107

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

413 (aa)

(Darlington et al., 1998, Rutila et al., 1998)

Comments

External Data

Subunit Structure (UniProtKB)

Efficient DNA binding requires dimerization with another bHLH protein. Forms a heterodimer with Clock in order to activate PER and TIM transcription.

(UniProt, O61734)

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

O61734

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\cyc using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

cyc_1

Linkouts

Gene Ontology (20 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

DNA binding

inferred from direct assay

(Yu et al., 2006)

protein heterodimerization activity

inferred from physical interaction with UniProtKB:O61735

(Maurer et al., 2009)

inferred from physical interaction with FLYBASE:Clk; FB:FBgn0023076

(Lee et al., 1999)

contributes_to RNA polymerase II regulatory region sequence-specific DNA binding

inferred from physical interaction with FLYBASE:Clk; FB:FBgn0023076

(Lee et al., 1999)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

DNA-binding transcription factor activity

inferred from electronic annotation with InterPro:IPR001067

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

protein heterodimerization activity

non-traceable author statement

(Hardin, 2000)

Biological Process (13 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

circadian regulation of gene expression

inferred from mutant phenotype

(Hung et al., 2007)

circadian regulation of heart rate

inferred from mutant phenotype

(Gill et al., 2015)

regulation of circadian sleep/wake cycle, sleep

inferred from mutant phenotype

(Yuan et al., 2006, Shaw et al., 2002)

response to starvation

inferred from direct assay

(Xu et al., 2008)

Terms Based on Predictions or Assertions (10 terms)

CV Term

Evidence

References

behavioral response to cocaine

traceable author statement

(Rothenfluh and Heberlein, 2002)

non-traceable author statement

(Sokolowski, 2001)

circadian rhythm

non-traceable author statement

(Sokolowski, 2001)

traceable author statement

(Emery and Reppert, 2004, Shaw and Franken, 2003, Glossop and Hardin, 2002, Panda et al., 2002, Hardin, 2000)

eclosion rhythm

traceable author statement

(Stanewsky, 2003)

non-traceable author statement

(Sokolowski, 2001)

locomotor rhythm

non-traceable author statement

(Sokolowski, 2001)

traceable author statement

(Stanewsky, 2003)

negative regulation of transcription by RNA polymerase II

non-traceable author statement

(Hardin, 2000)

positive regulation of transcription by RNA polymerase II

non-traceable author statement

(Hardin, 2000)

traceable author statement

(Stanewsky, 2003)

positive regulation of transcription, DNA-templated

traceable author statement

(Glossop and Hardin, 2002)

non-traceable author statement

(Panda et al., 2002)

regulation of circadian sleep/wake cycle, sleep

traceable author statement

(Hendricks, 2003, Shaw and Franken, 2003)

regulation of transcription, DNA-templated

inferred from electronic annotation with InterPro:IPR001067, InterPro:IPR013767

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

rhythmic behavior

traceable author statement

(Stanewsky, 2003)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

cytoplasm

inferred from electronic annotation with InterPro:IPR001067

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

nucleus

inferred from electronic annotation with InterPro:IPR001067

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

non-traceable author statement

(Panda et al., 2002)

transcription factor complex

inferred from electronic annotation with InterPro:IPR001067

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

gonad

(Fisher et al., 2012)

ventral nerve cord

(Fisher et al., 2012)

median neuroblast MNB interneuron

(Kearney et al., 2004)

MP1 neuron

(Kearney et al., 2004)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

head

(Rutila et al., 1998)

RT-PCR

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage | male

organism

(Rakshit et al., 2012)

Additional Descriptive Data

The amount of cyc is reduced slightly in old flies compared to young flies, with the difference being slightly more pronounced in heads than in bodies.

(Rakshit et al., 2012)

cyc transcripts are detected in adult head RNA. They do not exhibit any temporal cycling.

(Rutila et al., 1998)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

Reporter: P{GFP-cyc}

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

LP neuron

(Liu et al., 2015)

larval s-LNv Pdf neuron

(Liu et al., 2015)

larval LNd neuron

(Liu et al., 2015)

larval DN period neuron

(Liu et al., 2015)

(Liu et al., 2015)

(Liu et al., 2015)

(Liu et al., 2015)

(Liu et al., 2015)

(Liu et al., 2015)

(Liu et al., 2015)

(Liu et al., 2015)

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\cyc in GBrowse 2

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\cyc

View exonic expression by tissue for Dmel\cyc

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0023094

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0023094

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG8727-RA

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG8727

Flygut - An atlas of the Drosophila adult midgut

FBgn0023094

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 5 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 20 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of cyc

Transgenic constructs containing regulatory region of cyc

Deletions and Duplications ( 1 )

Disrupted in

Df(3L)kto2

(Rutila et al., 1998)

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

viable, with Scer\GAL4^Mef2.PR

cyc^GD1313

viable, with Scer\GAL4^pnr-MD237

cyc^GD1313

viable, with Scer\GAL4^tin.CΔ4

cyc^GD1313

Other Phenotypes

Allele

behavior defective

behavior defective (with Df(3L)kto2)

cyc⁰¹

circadian rhythm defective

cyc⁰¹

circadian rhythm defective, with Scer\GAL4^Or22a.8197

cyc^{Δ.UAS.Tag:MYC}

circadian rhythm defective, with Scer\GAL4^{Orco.2.642.Hsim\VP22}

cyc^{Δ.UAS.Tag:MYC}

circadian rhythm defective, with Scer\GAL4^tim.PE

cyc^{Δ.UAS.Tag:MYC}

circadian rhythm defective, with Scer\GAL4^to.PD

cyc^DN.UAS

eclosion rhythm defective, with Scer\GAL4^P2.4.Pdf

cyc^{Δ.UAS.Tag:MYC}

eclosion rhythm defective, with Scer\GAL4^phm.PO

cyc^{Δ.UAS.Tag:MYC}

eclosion rhythm defective, with Scer\GAL4^tim.PE

cyc^{Δ.UAS.Tag:MYC}

eclosion rhythm defective, with Scer\GAL4^tim.PE, Scer\GAL80^phm.1.2

cyc^{Δ.UAS.Tag:MYC}

eclosion rhythm defective | recessive

cyc⁰¹

locomotor rhythm defective

cyc⁰¹

locomotor rhythm defective, with Scer\GAL4^Act.PU

cyc^VP16.UAS

locomotor rhythm defective, with Scer\GAL4^{elav.Switch.PO}

cyc^DN.UAS

locomotor rhythm defective, with Scer\GAL4^elav-C155

cyc^VP16.UAS

locomotor rhythm defective, with Scer\GAL4^P2.4.Pdf

locomotor rhythm defective, with Scer\GAL4^tim.PE

locomotor rhythm defective | adult stage, with Scer\GAL4^Clk.2341

cyc^{Δ.UAS.Tag:MYC}

locomotor rhythm defective | adult stage, with Scer\GAL4^Clk.2341, Scer\GAL80^Pdf.PS

cyc^{Δ.UAS.Tag:MYC}

locomotor rhythm defective | adult stage, with Scer\GAL4^Dvir\Pdf.1.9, Scer\GAL4^GMR78G02, Scer\GAL80^Pdf.PS

cyc^{Δ.UAS.Tag:MYC}

locomotor rhythm defective | adult stage, with Scer\GAL4^P2.4.Pdf

cyc^{Δ.UAS.Tag:MYC}

locomotor rhythm defective | adult stage, with Scer\GAL4^tim.UAS

cyc^{Δ.UAS.Tag:MYC}

locomotor rhythm defective | recessive

mating rhythm defective | male, with Scer\GAL4^Desat1.PB

cyc^{Δ.UAS.Tag:MYC}

mating rhythm defective | male limited | recessive

cyc⁰¹

sleep defective

cyc⁰¹

sleep defective, with Scer\GAL4^P2.4.Pdf

cyc^{Δ.UAS.Tag:MYC}

visual behavior defective

cyc⁰¹

Phenotype manifest in

Allele

adult heart

cyc⁰¹

LN period neuron

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (5)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\ARNTL

13 of 15

Yes

Hsap\ARNTL2

11 of 15

Yes

Hsap\ARNT2

1 of 15

Hsap\ARNT

1 of 15

Hsap\PER3

1 of 15

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (6)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Arntl

13 of 15

Yes

Mmus\Arntl2

12 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

Rattus norvegicus (Norway rat) (5)

Rnor\Arntl

10 of 13

Yes

Rnor\Arntl2

4 of 13

Yes

Rnor\Arnt2

1 of 13

Rnor\Clock

1 of 13

Rnor\Per3

1 of 13

Xenopus tropicalis (Western clawed frog) (2)

Xtro\arntl

7 of 12

Yes

Xtro\arntl2

1 of 12

Yes

Danio rerio (Zebrafish) (9)

Drer\arntl1a

12 of 15

Yes

Drer\arntl1b

7 of 15

Yes

Drer\arntl2

4 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\aha-1

1 of 15

Yes

Cele\hlh-34

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\bHLH121

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091909J9 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Dmel\cyc

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA21284

Drosophila persimilis

Dper\GL15678

Drosophila willistoni

Dwil\GK17217

Drosophila virilis

Dvir\GJ14003

Drosophila mojavensis

Dmoj\GI13667

Drosophila grimshawi

Dgri\GH16911

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091505IK )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17023663

Glossina morsitans

Tsetse fly

Gmor\GMOY012009

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_03456

Mayetiola destructor

Hessian fly

Mdes\Mdes004792

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL002049

Anopheles darlingi

American malaria mosquito

Adar\ADAC003147

Anopheles gambiae

Malaria mosquito

Agam\AGAP012873

Anopheles gambiae

Malaria mosquito

Agam\CYC

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ014938

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W05FK )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA003870

Danaus plexippus

Monarch butterfly

Dple\DPOGS203011-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL011026

Apis florea

Little honeybee

Aflo\2700181012

Apis mellifera

Western honey bee

Amel\GB43953

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP15382

Bombus terrestris

Buff-tailed bumblebee

Bter\15205112

Linepithema humile

Argentine ant

Lhum\LH15139

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:001e73

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG007066

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_03758

Tribolium castaneum

Red flour beetle

Tcas\cycle

Tribolium castaneum

Red flour beetle

Tcas\TC032705

Pediculus humanus

Human body louse

Phum\PHUM580780

Rhodnius prolixus

Kissing bug

Rpro\cyc

Cimex lectularius

Bed bug

Clec\CLEC000189

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI004686

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_09580

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X05BK )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Stegodyphus mimosarum

African social velvet spider

Smim\KFM72510.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur08g07430

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_346995

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G126J )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Bmal

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Bmal_1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_005453gn

Gallus gallus

Domestic chicken

Ggal\ARNTL2

Gallus gallus

Domestic chicken

Ggal\ARNTL

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (8)

Gene Symbol

Score

Source

Alignment

Met

3 of 10

tgo

3 of 10

Clk

2 of 10

gce

1 of 10

sima

1 of 10

sim

1 of 10

tai

1 of 10

trh

1 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Comments on Models/Modifiers Based on Experimental Evidence ( 0 )

Disease Associations of Human Orthologs (via DIOPT v7.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

ARNTL; aryl hydrocarbon receptor nuclear translocator like

13 of 15

602550

ARNTL2; aryl hydrocarbon receptor nuclear translocator like 2

11 of 15

614517

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

esyN Network Diagram

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

RNA-protein

Physical Interaction

Assay

References

cyc - Atx2

anti tag coimmunoprecipitation, quantitative reverse transcription pcr, primer specific pcr

(Lee et al., 2017, Lim and Allada, 2013)

protein-protein

Physical Interaction

Assay

References

cyc - CG18011

two hybrid array

(Shokri et al., 2019)

cyc - Clk

two hybrid, pull down, tag visualisation, anti tag coimmunoprecipitation, anti tag western blot, anti bait coimmunoprecipitation, autoradiography

(Liu et al., 2017, Lee et al., 2016, Lee et al., 2014, Cheng et al., 2013, Kazemian et al., 2013, Maurer et al., 2009, Hung et al., 2007, Ceriani et al., 1999, Lee et al., 1999, Darlington et al., 1998)

cyc - Eip78C

two hybrid array

(Shokri et al., 2019)

cyc - Hr78

two hybrid array

(Shokri et al., 2019)

cyc - foxo

two hybrid array

(Shokri et al., 2019)

cyc - per

anti tag coimmunoprecipitation, autoradiography

(Lee et al., 1999)

cyc - tim

anti tag coimmunoprecipitation, autoradiography

(Lee et al., 1999)

Summary of Genetic Interactions

esyN Network Diagram

esyN Network Key:

Suppression

Enhancement

View in Interactions Browser

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Clk

suppressible

cyc

(Kadener et al., 2008)

External Data

Subunit Structure (UniProtKB)

Efficient DNA binding requires dimerization with another bHLH protein. Forms a heterodimer with Clock in order to activate PER and TIM transcription.

(UniProt, O61734 )

Linkouts

BioGRID - A database of protein and genetic interactions.

65431

DroID - A comprehensive database of gene and protein interactions.

FBgn0023094

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

40162

MIST (protein-protein) - An integrated Molecular Interaction Database

Pathways

Gene Group - Pathway Membership (FlyBase)

External Data

Linkouts

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-46

Cytogenetic map

76C6-76C6

Sequence location

3L:19,813,770..19,815,938 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

76C6-76C6

Limits computationally determined from genome sequence between P{lacW}l(3)L3809^L3809 and P{lacW}l(3)L1243^L1243&P{lacW}Mi-2^j3D4

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

76C-76D

(Rutila, 1998.5.15)

76C-76C

(Darlington, 1998.5.21)

76C-76C

(determined by in situ hybridisation)

(Darlington et al., 1998)

Experimentally Determined Recombination Data

Location

3-46

(FlyBase, 2016)

3-43.2

(Comeron et al., 2012)

(Rutila et al., 1998)

Left of (cM)

(Rutila et al., 1998)

Right of (cM)

(Rutila et al., 1998)

Notes

Stocks and Reagents

Stocks (13)

Bloomington

80929

cyc⁰¹

29400

y¹ v¹; P{TRiP.JF03333}attP2

31897

y¹ v¹; P{TRiP.JF02185}attP2

27950

y¹ w^*; P{EP}cyc^G4677

42563

y¹ v¹; P{TRiP.HMJ02219}attP40

55838

y¹ w^*; PBac{cyc-GFP.FPTB}VK00037

76318

w¹¹¹⁸; P{GFP-cyc}attP40; TM6B, Tb¹/TM2

35461

y¹ sc^* v¹ sev²¹; P{TRiP.GL00387}attP2

FlyORF

F003491

M{UAS-cyc.ORF-CC}ZH-21F

F000245

M{UAS-cyc.ORF.3xHA.GW}ZH-86Fb

VDRC

v110455

P{KK101917}VIE-260B

v11765

w¹¹¹⁸; P{GD1313}v11765/TM3

More stocks available...

Genomic Clones (8)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (20)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequences

BDGP DGC clones

SD27452

Other clones

FI01122

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0023094

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0023094

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

40162

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: cyc Mop3

(FlyBase, 1996-)

Additional comments

Source for merge of cyc Mop3 was sequence comparison ( date:000202 ).

(FlyBase, 1996-)

Other Comments

DNA-protein interactions: genome-wide binding profile (ChIP-chip) assayed for cyc protein in adult heads; see GEO_GSE32613 (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE32613).

(Abruzzi et al., 2011)

Clk and cyc proteins interact in the cytoplasm of S2R+ cells and heterodimerisation promotes nuclear import as well as phosphorylation of cytoplasmic Clk protein.

(Maurer et al., 2009)

cry functions as a repressor of Clk/cyc-activated transcription.

(Collins et al., 2006)

dco-mediated hyperphosphorylation of Clk does not require cyc or the DNA-binding domain of Clk.

(Kim and Edery, 2006)

Clk and cyc, along with other circadian genes per and dco (but not tim) have roles in regulating cocaine sensitization and may function as regulators of Tdc.

(Andretic et al., 1999)

Sensitization to repeated cocaine exposures, a phenomenon also seen in humans and animal models and associated with enhanced drug craving, is eliminated in flies mutant for per, dco, Clk, and cyc but not tim.

(Andretic et al., 1999)

Clk mRNA cycling is regulated by per-tim-mediated release of Clk- and cyc-dependent repression.

(Glossop et al., 1999)

Daily cycles in the association of per and tim proteins with the Clk-cyc complex may contribute to rhythmic expression of per and tim.

(Lee et al., 1999)

The tim-induced per mRNA level increase does not require cyc.

(Suri et al., 1999)

Mutation of the cyc gene produces flies that are behaviourally arrhythmic and have little per or tim transcription.

(Rutila et al., 1998)

Arrhythmic mutant. per and tim transcription levels are low and constant in cyc mutants.

(So et al., 1997)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 57 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

40162

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

O61734

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0023094

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0023094

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

cyc_1

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG8727

Flygut - An atlas of the Drosophila adult midgut

FBgn0023094

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

88599

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

40162

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

Dmel_CG8727

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Circadian

modMine - A data warehouse for the modENCODE project

FBgn0023094

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Linkouts

BioGRID - A database of protein and genetic interactions.

65431

DroID - A comprehensive database of gene and protein interactions.

FBgn0023094

DRSC - Results frm RNAi screens

FBgn0023094

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0023094

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG8727-RA

FlyMine - An integrated database for Drosophila genomics

FBgn0023094

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

40162

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Circadian rhythm - fly

MIST (protein-protein) - An integrated Molecular Interaction Database

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Synonyms and Secondary IDs (22)

Reported As

Symbol Synonym

BMAL1

(Hendricks et al., 2003, Darlington, 1998.5.21)

Bmal1

(Roenneberg and Merrow, 2003)

CG8727

(Ni et al., 2011.7.19, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Perkins et al., 2009, Stevens et al., 2008, Stevens et al., 2008)

CYC

(Giebultowicz, 2018, Krzeptowski et al., 2018, Pilorz et al., 2018, Xue and Zhang, 2018, Young, 2018, He et al., 2017, Liu et al., 2017, Erion et al., 2016, Ito and Tomioka, 2016, Lee et al., 2016, Mazzoccoli et al., 2016, Jaumouillé et al., 2015, Lerner et al., 2015, Merbitz-Zahradnik and Wolf, 2015, Zordan and Sandrelli, 2015, Anderson and Adolphs, 2014, Chen et al., 2014, Lee et al., 2014, Tataroglu and Emery, 2014, Weiss et al., 2014, Cheng et al., 2013, Erion and Sehgal, 2013, Górska-Andrzejak, 2013, Itoh et al., 2013, Abruzzi et al., 2011, Goda et al., 2011, Jackson, 2011, Lan and Mezić, 2011, Staiger and Koster, 2011, Weber et al., 2011, Allada and Chung, 2010, Fathallah-Shaykh, 2010, Gummadova et al., 2009, Yu et al., 2009, Dunlap, 2008, Kivimäe et al., 2008, Xu et al., 2008, Weber et al., 2007, Collins et al., 2006, Dunlap, 2006, Reppert, 2006, Yu and Hardin, 2006, Yu et al., 2006, Nawathean and Rosbash, 2004, Wang et al., 2001)

CYCLE

(Uriu and Tei, 2019, Erion and Sehgal, 2013, Itoh et al., 2013, Goda et al., 2011, Hastings and Maywood, 2000, Lee et al., 1999)

Cyc

(Kučerová et al., 2016, Lerner et al., 2015, Ghezzi et al., 2013, Peschel and Helfrich-Förster, 2011, Hardin, 2000, Loudon et al., 2000)

Cycle

(Górska-Andrzejak, 2013, Shaw and Franken, 2003)

MOP3

(Bae, 1998.6.2)

Mop3

TGO_CYC

(Blatti et al., 2015)

bHLHe7

(Stevens et al., 2008)

bMAL1

(Liman, 1998)

cyc

(Boomgarden et al., 2019, Bulthuis et al., 2019, Cho et al., 2019, Harbison et al., 2019, Meltzer, 2019-, Meltzer et al., 2019, Shokri et al., 2019, Sinigaglia et al., 2019, Solovev et al., 2019, Bischof et al., 2018, Doupé et al., 2018, Filošević et al., 2018, Nazario-Toole et al., 2018, Noreen et al., 2018, Zhang et al., 2018, Lee et al., 2017, Liu et al., 2017, Park et al., 2017, Selcho et al., 2017, Transgenic RNAi Project members, 2017-, Vaccaro et al., 2017, Donelson and Sanyal, 2015, Giebultowicz and Long, 2015, Gill et al., 2015, Grotewiel and Bettinger, 2015, Lerner et al., 2015, Liu et al., 2015, Pasco et al., 2015, Schertel et al., 2015, Tataroglu and Emery, 2015, Thimgan et al., 2015, Tomita et al., 2015, Zwarts et al., 2015, Liu et al., 2014, Victorsen and White, 2014.4.15, Joiner et al., 2013, Krupp et al., 2013, Lee et al., 2013, Lim and Allada, 2013, Mehta and Cheng, 2013, Pandey et al., 2013, Pohl et al., 2013, Rakshit et al., 2013, Sivachenko et al., 2013, Bywalez et al., 2012, Chen et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Kaun et al., 2012, Luo et al., 2012, Rakshit et al., 2012, Ruben et al., 2012, Abruzzi et al., 2011, Diangelo et al., 2011, Goda et al., 2011, Ito et al., 2011, Itoh et al., 2011, Lone and Sharma, 2011, Beaver et al., 2010, Blanchard et al., 2010, Chatterjee et al., 2010, Cooper et al., 2010, Fujii and Amrein, 2010, Gegear et al., 2010, Keene et al., 2010, Kula-Eversole et al., 2010, Li et al., 2010, Menet et al., 2010, Nagoshi et al., 2010, Thimgan et al., 2010, Xie et al., 2010, Bahn et al., 2009, Currie et al., 2009, Dworkin et al., 2009, Fathallah-Shaykh et al., 2009, Gummadova et al., 2009, Hung et al., 2009, Kempinger et al., 2009, Kilman and Allada, 2009, Maurer et al., 2009, Sehadova et al., 2009, Benito et al., 2008, Fujii et al., 2008, Houl et al., 2008, Ito et al., 2008, Kadener et al., 2008, Krishnan et al., 2008, Lee and Edery, 2008, Miura et al., 2008, Ogawa et al., 2008, Ratan et al., 2008, Tanoue et al., 2008, Taylor and Hardin, 2008, T et al., 2008, Xu et al., 2008, Yang et al., 2008, Fujii et al., 2007, Hung et al., 2007, Kurata et al., 2007, Lim et al., 2007, Vosshall, 2007, Williams et al., 2007, Yoshii et al., 2007, Chen et al., 2006, Ganguly-Fitzgerald et al., 2006, Ni et al., 2006, Rosbash, 2006.8.10, Seugnet et al., 2006, Van Gelder, 2006, Yuan et al., 2006, Cyran et al., 2005, Mazzoni et al., 2005, Yuan et al., 2005, Yuan et al., 2005, Beaver et al., 2003, Hendricks et al., 2003, Yoshii et al., 2002)

dBMAL

(Andretic and Hirsh, 1999)

dBMAL1

(Ishida et al., 2001, Aasland, 1998, Aasland, 1998)

dBma1

(Loudon et al., 2000)

dBmal

(Lucas and Foster, 1999)

dCYC

(Beckwith et al., 2011, Emery and Reppert, 2004)

dbmal

(Crosthwaite, 2004)

dbmal1

(Darlington et al., 1998, Green, 1998, Reppert, 1998, Schibler, 1998)

Name Synonyms

CYCLE

(Huang, 2018, Mendoza-Viveros et al., 2017, Jaumouillé et al., 2015, Weiss et al., 2014, Luo et al., 2012, Abruzzi et al., 2011, Beckwith et al., 2011, Yu et al., 2009, Houl et al., 2008, Dunlap, 2006, Yu and Hardin, 2006, Yu et al., 2006, Mazzoni et al., 2005)

Cycle

(Young, 2018, Mazzoccoli et al., 2016, Potdar and Sheeba, 2013, Gegear et al., 2010, T et al., 2008)

brain and muscle ARNT-like 1

(Darlington, 1998.5.21)

Secondary FlyBase IDs

FBgn0024953
FBgn0025108

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (339)

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