FlyBase Gene Report: Dmel\Cf2

General Information

Symbol

Dmel\Cf2

Species

D. melanogaster

Name

Chorion factor 2

Annotation Symbol

CG11924

Feature Type

protein_coding_gene

FlyBase ID

FBgn0000286

Gene Model Status

Current

Stock Availability

11 publicly available

Gene Snapshot

Chorion factor 2 (Cf2) encodes a zinc-finger DNA-binding transcription factor that is involved in follicle cell fate determination and regulation of myogenic gene expression. [Date last reviewed: 2019-03-07]

Other Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Red Book
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

25B1-25B1

Sequence location

2L:4,876,891..4,883,107 [-]

Recombination map

2-14

RefSeq locus

NT_033779 REGION:4876891..4883107

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (13 terms)

Molecular Function (5 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

enables DNA-binding transcription activator activity, RNA polymerase II-specific

inferred from direct assay

(Tanaka et al., 2008)

enables protein binding

inferred from physical interaction with FLYBASE:dod; FB:FBgn0015379

(Hsu et al., 2001)

enables sequence-specific DNA binding

inferred from direct assay

(Hsu et al., 1992)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables DNA-binding transcription factor activity, RNA polymerase II-specific

inferred from biological aspect of ancestor with PANTHER:PTN002810938

(assigned by GO_Central )

(Gaudet et al., 2011)

enables RNA polymerase II cis-regulatory region sequence-specific DNA binding

inferred from biological aspect of ancestor with PANTHER:PTN002810938

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (5 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

involved_in adult somatic muscle development

inferred from mutant phenotype

(Gajewski and Schulz, 2010)

involved_in dorsal appendage formation

inferred from mutant phenotype

(Mantrova and Hsu, 1998)

involved_in dorsal/ventral pattern formation

inferred from mutant phenotype

(Hsu et al., 1996)

involved_in positive regulation of transcription elongation from RNA polymerase II promoter

inferred from direct assay

(Tanaka et al., 2008)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in regulation of transcription, DNA-templated

inferred from biological aspect of ancestor with PANTHER:PTN001227002

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cytosol

inferred from direct assay

(Mantrova and Hsu, 1998)

located_in nucleus

inferred from direct assay

(Gajewski and Schulz, 2010, Tanaka et al., 2008, Bagni et al., 2002, Mantrova and Hsu, 1998, Hsu et al., 1996, Hsu et al., 1992, Shea et al., 1990)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in chromatin

inferred from biological aspect of ancestor with PANTHER:PTN002810938

(assigned by GO_Central )

(Gaudet et al., 2011)

Gene Group (FlyBase)

C2H2 ZINC FINGER TRANSCRIPTION FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

C2H2 ZINC FINGER TRANSCRIPTION FACTORS -: Zinc finger C2H2 transcription factors are sequence-specific DNA binding proteins that regulate transcription. They possess DNA-binding domains that are formed from repeated Cys₂His₂ zinc finger motifs. (Adapted from PMID:1835093, FBrf0220103 and FBrf0155739).

Protein Function (UniProtKB)

Transcriptional regulator; binds to the promoter region of Cp15. Also binds to its own promoter, thus having a probable autoregulatory role.

(UniProt, P20385)

Phenotypic Description (Red Book; Lindsley and Zimm 1992)

cf2

Encodes a protein that binds the promoter region of Cp15.

Summary (Interactive Fly)

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Cf2 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 5.48

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

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

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

gene_with_stop_codon_read_through ; SO:0000697

Stop-codon suppression (UAG) postulated; protein extension supported (FBrf0223513).

Gene model reviewed during 6.16

Sequence Ontology: Class of Gene

gene_with_stop_codon_read_through

(FlyBase Genome Annotators, 2017)

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Cf2-RA

FBtr0089649

NM_078750

3763

510

Cf2-RB

FBtr0089648

NM_175964

3679

482

Cf2-RC

FBtr0089647

NM_175965

3703

482

Cf2-RE

FBtr0304887

NM_175963

4231

482

Cf2-RF

FBtr0336835

NM_001273128

3576

431

Cf2-RG

FBtr0472669

NM_001363925

3703

537

Additional Transcript Data and Comments

Reported size (kB)

3.6, 2.65 (northern blot); 3.8 (compiled cDNA)

(Hsu et al., 1992)

3.5, 2.5 (northern blot)

(Shea et al., 1990)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

Cf2-PA

FBpp0088592

56.7

510

7.54

NP_523474

AAF50966

Cf2-PB

FBpp0088591

53.5

482

7.27

NP_787978

AAO41152

Cf2-PC

FBpp0088590

53.5

482

7.27

NP_787979

AAO41153

Cf2-PE

FBpp0293426

53.5

482

7.27

NP_787977

AAO41151

Cf2-PF

FBpp0307799

48.3

431

7.26

NP_001260057

AGB92593

Cf2-PG

FBpp0422630

58.6

537

7.37

AWM95300

Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

482 aa isoforms: Cf2-PB, Cf2-PC, Cf2-PE

Additional Polypeptide Data and Comments

Reported size (kDa)

514, 510, 482 (aa)

(Hsu et al., 1992)

Comments

One of several products generated by alternative splicing.

(FlyBase, 1992-)

The binding properties of the Cf2 protein

isoform I was studied in binding studies with oligonucleotides. Each

finger of the COOH-terminal domain recognizes a contiguous nucleotide

triplet in an antiparallel manner. The optimal targets are GTA for finger

6, TAT for fingers 5 and 5', and ATA for finger 4. The consensus binding

site is GTA.TAT.TAT.ATA where the dots delimit the triplets recognized by

each finger. Protein isoforms I and II recognize different DNA sequences,

suggesting that in vivo these isoforms regulate distinct genes.

(Gogos et al., 1992)

The binding properties of Cf2 protein isoform II was studied in binding studies with oligonucleotides. Each finger of the COOH-terminal domain recognizes a contiguous nucleotide triplet in an antiparallel manner. The optimal targets are GTA for finger 6, TAT for finger 5, and ATA for finger 4. The consensus binding site is GTA.TAT.ATA where the dots delimit the triplets recognized by each finger. Protein isoforms I and II recognize different DNA sequences, suggesting that in vivo these isoforms regulate distinct genes.

(Gogos et al., 1992)

The binding properties of the Cf2 protein isoform I was studied in binding studies with oligonucleotides. Each finger of the COOH-terminal domain recognizes a contiguous nucleotide triplet in an antiparallel manner. The optimal targets are GTA for finger 6, TAT for fingers 5 and 5'', and ATA for finger 4. The consensus binding site is GTA.TAT.TAT.ATA where the dots delimit the triplets recognized by each finger. Protein isoforms I and II recognize different DNA sequences,suggesting that in vivo these isoforms regulate distinct genes.

(Gogos et al., 1992)

(Hsu et al., 1992)

Three different protein isoforms of Cf2 are generated as a result of alternate splicing of the Cf2 transcript. All three contain three amino-terminal Zn fingers which do not appear to contribute to specific DNA sequence recognition. Isoform II contains 3 additional fingers, each of which recognizes a contiguous nucleotide triplet in an antiparallel manner. The preferred DNA binding sites were defined in a companion paper (FBrf 57626). A nearly perfect consensus sequence for isoform II is found in the Cp15 promoter. Protein isoforms I and II recognize different DNA sequences, suggesting that in vivo these isoforms regulate distinct genes.

(Hsu et al., 1992)

Three different protein isoforms of Cf2 are generated as a result of alternate splicing of the Cf2 transcript. All three contain three amino-terminal Zn fingers which do not appear to contribute to specific DNA sequence recognition. Isoform I contains 4 additional fingers, each of which recognizes a contiguous nucleotide triplet in an antiparallel manner. The preferred DNA binding sites were defined in a companion paper (FBrf 57626). The Cf2 gene itself has a possible Cf2 isoform I protein recognition sequence suggesting that isoform I may be used to autoregulate Cf2 expression. Protein isoforms I and II recognize different DNA sequences, suggesting that in vivo these isoforms regulate distinct genes.

(Hsu et al., 1992)

Cf2 protein is a DNA-binding protein that binds to specific elements of the Cp15 promoter that have been shown to be important for in vivo expression. The major Cf2 protein-binding site overlaps that of usp protein but is shifted slightly upstream.

(Shea et al., 1990)

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Cf2 using the Feature Mapper tool.

External Data

Crossreferences

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

Cf2_1

Linkouts

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

No Assay Recorded

Stage

Tissue/Position (including subcellular localization)

Reference

pupal stage

(Hsu et al., 1992)

adult stage & oogenesis

follicle cell

(Shea et al., 1990)

egg chamber

(Hsu et al., 1992)

adult stage | male

(Hsu et al., 1992)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

head mesoderm

(Fisher et al., 2012)

organism | faint | ubiquitous

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic/larval somatic muscle

(Fisher et al., 2012)

embryonic/larval visceral muscle

(Fisher et al., 2012)

organism | faint | ubiquitous

(Fisher et al., 2012)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

oogenesis & adult stage | female

ovary

(Shea et al., 1990)

embryonic stage -- adult stage

(Hsu et al., 1992)

pcr

Stage

Tissue/Position (including subcellular localization)

Reference

spermatogenesis & adult stage

testis

(Hsu et al., 1992)

pupal stage

(Hsu et al., 1992)

RNase protection, primer extension, SI map

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage

(Hsu et al., 1992)

oogenesis & adult stage | female

ovary

(Hsu et al., 1992)

RT-PCR

Stage

Tissue/Position (including subcellular localization)

Reference

pupal stage P7 -- adult stage

indirect flight muscle

(Gajewski and Schulz, 2010)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

enzyme assay or biochemical detection

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage & oogenesis

follicle cell

(Shea et al., 1990)

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 12 -- 14

somatic mesoderm

(Bagni et al., 2002)

visceral mesoderm

(Bagni et al., 2002)

foregut visceral muscle primordium

(Bagni et al., 2002)

hindgut visceral muscle primordium

(Bagni et al., 2002)

embryonic stage 13

midgut longitudinal visceral muscle primordium

(Bagni et al., 2002)

embryonic stage 14 -- 15

fused midgut primordium

(Bagni et al., 2002)

embryonic stage 15 -- 16

embryonic somatic muscle

• nucleus

(Bagni et al., 2002)

embryonic stage 16 -- 17

embryonic/larval somatic muscle

• nucleus

(Bagni et al., 2002)

embryonic stage 13 -- 14

embryonic cardioblast

• nucleus

(Bagni et al., 2002)

embryonic stage 15 -- 17

embryonic dorsal vessel

• nucleus

(Bagni et al., 2002)

adult stage

indirect flight muscle

• nucleus

(Gajewski and Schulz, 2010)

Additional Descriptive Data

Cf2 protein is present in nuclear extracts from ovaries.

(Bagni et al., 2002, Shea et al., 1990)

Cf2 protein is not detected until embryonic stage 15.

(Hsu et al., 1992)

Cf2 protein is present in ovarian follicles.

(Shea et al., 1990)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytosol

inferred from direct assay

(Mantrova and Hsu, 1998)

located_in nucleus

inferred from direct assay

(Gajewski and Schulz, 2010, Tanaka et al., 2008, Bagni et al., 2002, Mantrova and Hsu, 1998, Hsu et al., 1996, Hsu et al., 1992, Shea et al., 1990)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Cf2 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\Cf2

View exonic expression by tissue for Dmel\Cf2

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

FBgn0000286

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

FBgn0000286

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

CG11924

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 7 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 14 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Cf2

Transgenic constructs containing regulatory region of Cf2

Deletions and Duplications ( 4 )

Disrupted in

Df(2L)Exel6010

(Ryder, 2004.4.26)

Df(2L)Exel8012

(Ryder, 2004.4.26)

Df(2L)Exel9062

(Ryder, 2004.4.26)

Df(2L)γ²⁷

(Bagni et al., 2002, Hsu et al., 1996)

Phenotypes

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

Lethality

Allele

lethal, with Scer\GAL4^pnr-MD237

Cf2^GD4422

lethal - all die before end of embryonic stage | non-rescuable maternal effect

Cf2^s.hs

viable

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Cf2^GD16541

viable, with Scer\GAL4^pnr-MD237

Cf2^GD16541

Other Phenotypes

Allele

flight defective

Cf2^KG08941

flightless

Cf2^KG05342

jumping defective

some die during embryonic stage | non-rescuable maternal effect

Cf2^s.hs

visible, with Scer\GAL4^Bx-MS1096

Cf2^KK112296

visible, with Scer\GAL4^pnr-MD237

Cf2^GD4422

Phenotype manifest in

Allele

denticle belt | non-rescuable maternal effect

Cf2^s.hs

dorsal appendage

dorsal appendage | non-rescuable maternal effect

Cf2^s.hs

egg chamber

embryonic/first instar larval cuticle | non-rescuable maternal effect

Cf2^s.hs

follicle cell

indirect flight muscle

indirect flight muscle, with Scer\GAL4^Act88F.1.3

indirect flight muscle, with Scer\GAL4^Mhc.F3-580

M band

mesothoracic extracoxal depressor muscle 66

mesothoracic tergum, with Scer\GAL4^pnr-MD237

Cf2^GD4422

myosin filament

trichogen cell, with Scer\GAL4^pnr-MD237

Cf2^GD4422

wing, with Scer\GAL4^Bx-MS1096

Cf2^KK112296

Z disc

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (14)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\GLI4

1 of 15

Yes

Hsap\PLAG1

1 of 15

Yes

Hsap\SCRT1

1 of 15

Yes

Hsap\SCRT2

1 of 15

Yes

Hsap\ZBTB4

1 of 15

Yes

Hsap\ZBTB38

1 of 15

Yes

Hsap\ZFAT

1 of 15

Yes

Hsap\ZNF221

1 of 15

Yes

Hsap\ZNF274

1 of 15

Yes

Hsap\ZNF281

1 of 15

Yes

Hsap\ZNF284

1 of 15

Yes

Hsap\ZNF341

1 of 15

Yes

Hsap\ZNF646

1 of 15

Yes

Hsap\ZNF648

1 of 15

Yes

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (11)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Zfp110

2 of 15

Yes

Mmus\Fezf2

1 of 15

Mmus\Gm32687

1 of 15

Yes

Mmus\Plag1

1 of 15

Yes

Mmus\Scrt1

1 of 15

Mmus\Scrt2

1 of 15

Mmus\Zbtb4

1 of 15

Yes

Mmus\Zbtb38

1 of 15

Mmus\Zfat

1 of 15

Yes

Mmus\Zfp341

1 of 15

Yes

Mmus\Zfp513

1 of 15

Yes

Rattus norvegicus (Norway rat) (9)

Rnor\Fezf2

1 of 13

Yes

Rnor\Plag1

1 of 13

Yes

Rnor\Scrt1

1 of 13

Yes

Rnor\Scrt2

1 of 13

Yes

Rnor\Zbtb4

1 of 13

Yes

Rnor\Zbtb38

1 of 13

Yes

Rnor\Zfat

1 of 13

Yes

Rnor\Zfp110

1 of 13

Yes

Rnor\Zfp646

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (6)

Xtro\patz1

1 of 12

Yes

Xtro\plag1

1 of 12

Yes

Xtro\prdm1

1 of 12

Yes

Xtro\zbtb38

1 of 12

Yes

Xtro\znf341

1 of 12

Yes

Xtro\znf711

1 of 12

Yes

Danio rerio (Zebrafish) (19)

Drer\gfi1ab

1 of 15

Yes

Drer\LOC563292

1 of 15

Yes

Drer\plag1

1 of 15

Yes

Drer\scrt1a

1 of 15

Yes

Drer\scrt1b

1 of 15

Yes

Drer\scrt2

1 of 15

Yes

Drer\si:ch211-79k12.2

1 of 15

Yes

Drer\si:ch211-148l7.4

1 of 15

Yes

Drer\si:ch211-241b2.4

1 of 15

Yes

Drer\si:ch211-261d7.6

1 of 15

Yes

Drer\vezf1a

1 of 15

Yes

Drer\zbtb4

1 of 15

Yes

Drer\zbtb41

1 of 15

Yes

Drer\zfat

1 of 15

Yes

Drer\zgc:165514

1 of 15

Yes

Drer\zgc:174224

1 of 15

Yes

Drer\znf341

1 of 15

Yes

Drer\znf576.2

1 of 15

Yes

Drer\znf770

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (5)

Cele\blmp-1

1 of 15

Yes

Cele\egrh-3

1 of 15

Yes

Cele\hbl-1

1 of 15

Yes

Cele\lin-29

1 of 15

Yes

Cele\Y37F4.6

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (7)

Atha\IDD12

1 of 9

Yes

Atha\IDD14

1 of 9

Yes

Atha\IDD16

1 of 9

Yes

Atha\NTT

1 of 9

Yes

Atha\SGR5

1 of 9

Yes

Atha\WIP4

1 of 9

Yes

Atha\WIP5

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (3)

Scer\CMR3

1 of 15

Yes

Scer\CRZ1

1 of 15

Yes

Scer\YPR015C

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\hsr1

1 of 12

Yes

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091907M5 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA11281

Drosophila persimilis

Dper\GL19495

Drosophila willistoni

Dwil\GK24592

Drosophila virilis

Dvir\GJ16128

Drosophila mojavensis

Dmoj\GI20998

Drosophila grimshawi

Dgri\GH13662

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915069Z )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17022894

Glossina morsitans

Tsetse fly

Gmor\GMOY008172

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_02596

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )

No non-Dipteran orthologies identified

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0677 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Ixodes scapularis

Black-legged tick

Isca\ISCW017895

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G034R )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Hypp_2112

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Thap2

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000012683

Gallus gallus

Domestic chicken

Ggal\THAP1

Gallus gallus

Domestic chicken

Ggal\ENSGALG00000009494

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (50)

Gene Symbol

Score

Source

Alignment

sna

3 of 10

CG4820

2 of 10

CG10959

2 of 10

CG11906

2 of 10

esg

2 of 10

Kah

2 of 10

wor

2 of 10

Aef1

1 of 10

Blimp-1

1 of 10

btd

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

her

1 of 10

hkb

1 of 10

luna

1 of 10

M1BP

1 of 10

MTF-1

1 of 10

nom

1 of 10

odd

1 of 10

ouib

1 of 10

prg

1 of 10

ranshi

1 of 10

rgr

1 of 10

scrt

1 of 10

Sp1

1 of 10

sqz

1 of 10

sug

1 of 10

wdn

1 of 10

ZIPIC

1 of 10

zld

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

Disease Associations of Human Orthologs (via DIOPT v8.0 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?

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

protein-protein

Physical Interaction

Assay

References

Cf2 - Act79B

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

Cf2 - Ets65A

two hybrid array

(Shokri et al., 2019)

Cf2 - Irbp18

two hybrid array

(Shokri et al., 2019)

Cf2 - Lmx1a

two hybrid array

(Shokri et al., 2019)

Cf2 - lwr

two hybrid

(Hu et al., 2017.6.13)

Cf2 - org-1

two hybrid array

(Shokri et al., 2019)

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

suppressible

(Hsu et al., 1996)

suppressible

(Hsu et al., 1996)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

59880

DroID - A comprehensive database of gene and protein interactions.

FBgn0000286

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

33692

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

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

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

Dorso-ventral axis formation

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-14

Cytogenetic map

25B1-25B1

Sequence location

2L:4,876,891..4,883,107 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

25B1-25B1

Limits computationally determined from genome sequence between P{lacW}l(2)k10004^k10004&P{EP}CG3036^EP963 and P{PZ}l(2)05714⁰⁵⁷¹⁴

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

25A5-25A8

(determined by in situ hybridisation)

(Hsu et al., 1992)

Experimentally Determined Recombination Data

Location

2-14

(FlyBase, 2016)

2-15.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (11)

Bloomington

38458

y¹ w^*; P{UAS-Cf2.M}3

85015

w¹¹¹⁸; PBac{PB}Cf2^c01640

90832

y¹ w^*; PBac{Cf2-GFP.FPTB}VK00031

37710

y¹ w^*; Mi{MIC}Cf2^MI04551

14439

y¹ w^67c23; P{SUPor-P}Cf2^KG05342

14778

y¹ w^67c23; P{SUPor-P}Cf2^KG08941

57256

y¹ sc^* v¹ sev²¹; P{TRiP.HMC04649}attP40

FlyORF

F004519

M{UAS-Cf2.ORF-CC}ZH-21F

F000458

M{UAS-Cf2.ORF.3xHA.GW}ZH-86Fb

VDRC

v103664

P{KK112296}VIE-260B

v48895

w¹¹¹⁸; P{GD16541}v48895

Genomic Clones (12)

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

cDNA Clones (17)

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 sequenced

BDGP DGC clones

Other clones

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.

FBgn0000286

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0000286

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

33692

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: Cf2 BcDNA:GM09668

(FlyBase, 1996-)

Additional comments

Source for merge of Cf2 BcDNA:GM09668 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Other Comments

RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R⁺ cells.

(Boutros et al., 2004)

Cf2 protein is a target of down-regulation by the MAPK kinase cascade during oogenesis and this down-regulation is independent of rho function.

(Mantrova and Hsu, 1998)

Cf2 zinc fingers function in DNA binding in vitro and in vivo and site-specific mutagenesis and binding site selection define the critical amino acid-base interactions in detail.

(Gogos et al., 1996)

Cf2 protein functions as a repressor of dorsally expressed genes.

(Hsu et al., 1996)

Ectopic expression or depletion of Cf2 alters the dorsoventral polarity of the egg chamber. Mosaic analysis suggests that loss of Cf2 can lead to overproduction of dorsal appendage material. Ectopic expression of Cf2 counteracts the dorsalising effect of fs(1)K10 mutants but exacerbates heterozygous Egfr torpedo mutant phenotypes.

(Hsu et al., 1996)

Tm1 regulatory regions have high affinity binding sites for Cf2, gel mobility shift assays reveal that Cf2 recognises a target site in the Tm1 enhancer region located in the first intron.

(Bagni and Kafatos, 1995)

Cf2 plays a central role in the grk - Egfr signal transduction process in the follicle cells.

(Hsu et al., 1995)

Cf2-I and Cf2-II, the two major forms of chorion transcription factor, differ by an extra Zn-finger within DNA binding domain, due to alternative splicing. Preferred DNA binding sites were determined for each by in vitro binding studies and are distinguished by internal duplication of TAT in the site recognised by form with extra finger. Modular interactions between fingers and trinucleotides together with alternative splicing of Cf2 cause altered binding specificity and target site recognition by DNA binding domains. Cf2-II binding is to AT-rich regions in the Cp15 promoter.

(Gogos et al., 1992)

Cf2 transcripts are subject to developmentally regulated alternative splicing, to generate protein isoforms that differ in the number of Zn fingers. These different products bind to distinct promoters and DNA target sequences: Cf2-II isoform binds tightly to Cp15 chorion gene promoter whereas Cf2-I binds only weakly, but Cf2-I binds to the Cf2 promoter itself whereas Cf2-II doesn't.

(Hsu et al., 1992)

Molecular cloning and characterization has shown Cf2 to be a novel member of the zinc finger protein superfamily: Cf2 protein has zinc fingers of the C₂H₂ type.

(Shea et al., 1990)

Encodes a protein that binds the promoter region of Cp15.

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 59 )

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.

33692

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

P20385

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0000286

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

FBgn0000286

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

Cf2_1

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

CG11924

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

33692

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

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

Dmel_CG11924

modMine - A data warehouse for the modENCODE project

FBgn0000286

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

P20385

Linkouts

BioGRID - A database of protein and genetic interactions.

59880

DPiM - Drosophila Protein interaction map

FBgn0000286

DroID - A comprehensive database of gene and protein interactions.

FBgn0000286

DRSC - Results frm RNAi screens

FBgn0000286

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

FBgn0000286

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0000286

FlyMine - An integrated database for Drosophila genomics

FBgn0000286

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.

33692

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

Dorso-ventral axis formation

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

Synonyms and Secondary IDs (10)

Reported As

Symbol Synonym

BcDNA:GM09668

CF2.5

(Dalby et al., 1995)

CG11924

(Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Whitfield, 2000.10.5)

Cf2

(Shokri et al., 2019, Bischof et al., 2018, FlyBase Genome Annotators, 2017, Hu et al., 2017.6.13, Nadimpalli et al., 2015, Schertel et al., 2015, Fedotov et al., 2014, Hammonds et al., 2013, Schrider et al., 2011, Aerts et al., 2010, Tanaka et al., 2008, Glazov et al., 2005)

cf2

(Wohlwill and Storti, 1997)

Name Synonyms

Chorion Factor-2

(Bryantsev et al., 2008)

Chorion factor 2

(Venables et al., 2012, Cho et al., 2005, Glazov et al., 2005)

Chorion factor-2

(Munoz-Descalzo et al., 2007)

chorion factor 2

(Tanaka et al., 2008)

Secondary FlyBase IDs

FBgn0062475

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (99)

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

Report Sections