FB2020_06, released Dec 22, 2020

Gene: Dmel\CG12236

Open Close
General Information
Symbol
Dmel\CG12236
Species
D. melanogaster
Name
Annotation Symbol
CG12236
Feature Type
protein_coding_gene
FlyBase ID
FBgn0029822
Gene Model Status
Current
Stock Availability
8 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
5C7-5C7
Sequence location
X:5,908,135..5,913,079 [+]
Recombination map

1-14

RefSeq locus
NC_004354 REGION:5908135..5913079
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (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
enables DNA-binding transcription repressor activity, RNA polymerase II-specific
inferred from sequence or structural similarity with UniProtKB:O14867
(FlyBase Curators, 2008--)
enables 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
involved_in negative regulation of transcription by RNA polymerase II
inferred from sequence or structural similarity with UniProtKB:O14867
(FlyBase Curators, 2008--)
involved_in 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
located_in 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)
Gene Group (FlyBase)
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).
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see 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.
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
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
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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • 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\GAL4Bx-MS1096
Phenotype manifest in
Allele
wing | male limited, with Scer\GAL4Bx-MS1096
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (6)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\BTBD18
2 of 15
Yes
No
Hsap\NACC1
2 of 15
Yes
Yes
Hsap\BACH1
1 of 15
No
Yes
Hsap\BACH2
1 of 15
No
No
Hsap\ZBTB9
1 of 15
No
Yes
Hsap\ZBTB43
1 of 15
No
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Nacc1
2 of 15
Yes
Yes
Mmus\Btbd18
1 of 15
No
Yes
Mmus\Zbtb49
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (2)
Rnor\Btbd18
1 of 13
Yes
No
Rnor\Nacc1
1 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\btbd18
1 of 12
Yes
Yes
Xtro\nacc1
1 of 12
Yes
Yes
Danio rerio (Zebrafish) (3)
Drer\btbd18
1 of 15
Yes
Yes
Drer\nacc1b
1 of 15
Yes
Yes
Drer\zbtb7a
1 of 15
Yes
No
Caenorhabditis elegans (Nematode, roundworm) (2)
Cele\F10B5.3
1 of 15
Yes
Yes
Cele\R09A1.2
1 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\CMR3
1 of 15
Yes
No
Scer\YPR015C
1 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190C8R )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00008200
Drosophila simulans
Dsim\GD16766
Drosophila sechellia
Dsec\GM12449
Drosophila erecta
Dere\GG18799
Drosophila yakuba
Dyak\GE17561
Drosophila ananassae
Dana\GF22079
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 v8.0)
Drosophila melanogaster (Fruit fly) (34)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG8924
3 of 10
mod(mdg4)
3 of 10
ab
2 of 10
bab1
2 of 10
bab2
2 of 10
br
2 of 10
BtbVII
2 of 10
CG3726
2 of 10
CG6118
2 of 10
CG32121
2 of 10
CG34376
2 of 10
chinmo
2 of 10
fru
2 of 10
lola
2 of 10
lov
2 of 10
mamo
2 of 10
psq
2 of 10
rib
2 of 10
Trl
2 of 10
ttk
2 of 10
Aef1
1 of 10
Cf2
1 of 10
CG1812
1 of 10
CG6765
1 of 10
CG10959
1 of 10
CG14655
1 of 10
CG15812
1 of 10
Clamp
1 of 10
hkb
1 of 10
Kr
1 of 10
lolal
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 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
    Show neighbor-neighbor interactions:
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    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.
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    X
    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}Act5CEP1604&P{EP}EP444 and P{EP}EP1457EP1457&P{EP}CG5928EP1083
    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)
    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 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.

    cDNA Clones, End Sequenced (ESTs)
    BDGP DGC clones
    Other clones
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    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.
    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
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
    Flygut - An atlas of the Drosophila adult midgut
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    InterPro - A database of protein families, domains and functional sites
    KEGG Genes - Molecular building blocks of life in the genomic space.
    modMine - A data warehouse for the modENCODE project
    Linkouts
    DPiM - Drosophila Protein interaction map
    DroID - A comprehensive database of gene and protein interactions.
    DRSC - Results frm RNAi screens
    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
    FlyMine - An integrated database for Drosophila genomics
    Synonyms and Secondary IDs (2)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (31)