FlyBase Gene Report: Dmel\CG12236

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).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\CG12236 or the JBrowse view of Dmel\CG12236 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 5.47

Gene model reviewed during 5.55

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG12236-RA

FBtr0070825

NM_167054

2335

553

CG12236-RB

FBtr0070826

NM_132049

3038

510

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

CG12236-PA

FBpp0070790

60.8

553

6.23

NP_727050

AAF46100

CG12236-PB

FBpp0070791

56.9

510

6.08

NP_572277

AAN09155

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG12236 using the Feature Mapper tool.

External Data

Crossreferences

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

CG12236_1

Linkouts

Gene Ontology (5 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

DNA-binding transcription repressor activity, RNA polymerase II-specific

inferred from sequence or structural similarity with UniProtKB:O14867

(FlyBase Curators, 2008--)

nucleic acid binding

inferred from electronic annotation with InterPro:IPR013087

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

negative regulation of transcription by RNA polymerase II

inferred from sequence or structural similarity with UniProtKB:O14867

(FlyBase Curators, 2008--)

regulation of transcription by RNA polymerase II

inferred from biological aspect of ancestor with PANTHER:PTN001135010

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

nucleus

inferred from sequence or structural similarity with UniProtKB:O14867

(FlyBase Curators, 2008--)

inferred from biological aspect of ancestor with PANTHER:PTN001135010

(assigned by GO_Central )

(Gaudet et al., 2011)

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 4 -- 6

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

ventral nerve cord

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\CG12236 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\CG12236

View exonic expression by tissue for Dmel\CG12236

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

FBgn0029822

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

FBgn0029822

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG12236-RB;CG12236-RA

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

CG12236

Flygut - An atlas of the Drosophila adult midgut

FBgn0029822

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\CG12236

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 9 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG12236

Transgenic constructs containing regulatory region of CG12236

Deletions and Duplications ( 0 )

Phenotypes

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

Other Phenotypes

Allele

visible | male limited, with Scer\GAL4^Bx-MS1096

CG12236^{UAS.ORF.GW.Tag:HA}

Phenotype manifest in

Allele

wing | male limited, with Scer\GAL4^Bx-MS1096

CG12236^{UAS.ORF.GW.Tag:HA}

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (6)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\NACC1

2 of 15

Yes

Hsap\BACH1

1 of 15

Yes

Hsap\BACH2

1 of 15

Hsap\NACC2

1 of 15

Hsap\ZBTB9

1 of 15

Yes

Hsap\ZBTB43

1 of 15

Yes

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (3)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Nacc1

2 of 15

Yes

Mmus\Nacc2

1 of 15

Mmus\Zbtb49

1 of 15

Yes

Rattus norvegicus (Norway rat) (3)

Rnor\Nacc1

1 of 13

Yes

Rnor\Nacc2

1 of 13

Yes

Rnor\Zbtb49

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\nacc1

1 of 12

Yes

Xtro\nacc2

1 of 12

Yes

Danio rerio (Zebrafish) (4)

Drer\bcl6ab

1 of 15

Yes

Drer\LOC559520

1 of 15

Yes

Drer\nacc1b

1 of 15

Yes

Drer\zbtb7a

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

No records found.

Arabidopsis thaliana (thale-cress) (0)

No records found.

Saccharomyces cerevisiae (Brewer's yeast) (2)

Scer\CMR3

1 of 15

Yes

Scer\YPR015C

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190C8R )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Dmel\CG12236

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA26473

Drosophila persimilis

Dper\GL14892

Drosophila persimilis

Dper\GL14890

Drosophila willistoni

Dwil\GK20126

Drosophila virilis

Dvir\GJ14749

Drosophila mojavensis

Dmoj\GI15314

Drosophila grimshawi

Dgri\GH24374

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091506OD )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17013795

Glossina morsitans

Tsetse fly

Gmor\GMOY004036

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_04909

Mayetiola destructor

Hessian fly

Mdes\Mdes011284

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL002435

Anopheles darlingi

American malaria mosquito

Adar\ADAC002845

Anopheles gambiae

Malaria mosquito

Agam\AGAP001073

Anopheles gambiae

Malaria mosquito

Agam\AGAP012669

Anopheles gambiae

Malaria mosquito

Agam\AGAP010063

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ013651

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W06T0 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA002948

Danaus plexippus

Monarch butterfly

Dple\DPOGS215848-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL007461

Apis florea

Little honeybee

Aflo\2863733428

Apis mellifera

Western honey bee

Amel\GB45709

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP18844

Bombus terrestris

Buff-tailed bumblebee

Bter\15216575

Linepithema humile

Argentine ant

Lhum\LH20088

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:0026ac

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG003745

Pediculus humanus

Human body louse

Phum\PHUM584710

Rhodnius prolixus

Kissing bug

Rpro\RPRC001972

Cimex lectularius

Bed bug

Clec\CLEC007046

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_02870

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )

No non-Arthropod Metazoa orthologies identified

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (32)

Gene Symbol

Score

Source

Alignment

4 of 10

3 of 10

3 of 10

3 of 10

3 of 10

3 of 10

fru

3 of 10

lolal

3 of 10

lola

3 of 10

lov

3 of 10

mamo

3 of 10

psq

3 of 10

rib

3 of 10

Trl

3 of 10

ttk

3 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

1 of 10

Cf2

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

hkb

1 of 10

odd

1 of 10

sna

1 of 10

sug

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 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?

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

CG12236 - GATAd

two hybrid array

(Shokri et al., 2019)

CG12236 - nau

two hybrid array

(Shokri et al., 2019)

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0029822

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-14

Cytogenetic map

5C7-5C7

Sequence location

X:5,908,135..5,913,079 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

5C7-5C7

Limits computationally determined from genome sequence between P{EP}Act5C^EP1604&P{EP}EP444 and P{EP}EP1457^EP1457&P{EP}CG5928^EP1083

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

1-14

(FlyBase, 2016)

1-15.6

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (8)

Bloomington

32583

w^* P{EP}CG12236^G701

31949

y¹ v¹; P{TRiP.JF02241}attP2

64803

w¹¹¹⁸; PBac{CG12236-GFP.FPTB}VK00033

79958

y¹ sc^* v¹ sev²¹; P{TOE.GS02265}attP40

FlyORF

F000697

M{UAS-CG12236.ORF.3xHA.GW}ZH-86Fb

VDRC

v100972

P{KK106409}VIE-260B

v341197

P{hsFLP}1, y¹ w¹¹¹⁸; P{HD_CFD00225}attP40/CyO-GFP

v341408

P{hsFLP}1, y¹ w¹¹¹⁸; P{HD_CFD00472}attP40/CyO-GFP

Genomic Clones (10)

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

cDNA Clones (51)

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

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.

FBgn0029822

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0029822

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

31523

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Additional comments

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)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 38 )

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.

31523

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

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0029822

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

FBgn0029822

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

CG12236_1

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

CG12236

Flygut - An atlas of the Drosophila adult midgut

FBgn0029822

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

31523

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

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

Dmel_CG12236

modMine - A data warehouse for the modENCODE project

FBgn0029822

Linkouts

DPiM - Drosophila Protein interaction map

FBgn0029822

DroID - A comprehensive database of gene and protein interactions.

FBgn0029822

DRSC - Results frm RNAi screens

FBgn0029822

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

FBgn0029822

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG12236-RB;CG12236-RA

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0029822

FlyMine - An integrated database for Drosophila genomics

FBgn0029822

Synonyms and Secondary IDs (1)

Reported As

Symbol Synonym

CG12236

(Shokri et al., 2019, Transgenic RNAi Project members, 2017-, model organism Encyclopedia of Regulatory Network (modERN) Project, 2015-, Nadimpalli et al., 2015, Schertel et al., 2015, Japanese National Institute of Genetics, 2012.5.21, Keleman et al., 2009.8.5, Perkins et al., 2009, Holloway et al., 2008, Quijano et al., 2008, Laayouni et al., 2007)

Name Synonyms

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (29)

Report Sections

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