FB2024_03 , released June 25, 2024
Gene: Dmel\chn
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General Information
Symbol
Dmel\chn
Species
D. melanogaster
Name
charlatan
Annotation Symbol
CG11798
Feature Type
protein_coding_gene
FlyBase ID
FBgn0015371
Gene Model Status
Current
Stock Availability
100 publicly available
Gene Summary
charlatan (chn) encodes a C2H2 zinc-finger transcriptional factor that regulates multiple genes, including emc, hry, ac and Delta. It functions in sensory neurons, photoreceptors, blood cells, muscle precursors and intestinal precursors. [Date last reviewed: 2018-09-20] (FlyBase Gene Snapshot)
All Summaries
Also Known As

l(2)02064

Key Links
Genomic Location
Cytogenetic map
51E1-51E2
Sequence location
Recombination map
2-74
RefSeq locus
NT_033778 REGION:15115236..15144783
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
Gene Ontology (GO) Annotations (17 terms)
Molecular Function (5 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
enables DNA-binding transcription factor activity, RNA polymerase II-specific
inferred from direct assay
(Escudero et al., 2005)
enables DNA-binding transcription repressor activity, RNA polymerase II-specific
inferred from direct assay
(Tsuda et al., 2006)
enables protein binding
inferred from physical interaction with FLYBASE:CoRest; FB:FBgn0261573
(Tsuda et al., 2006)
enables sequence-specific DNA binding
inferred from direct assay
(Tsuda et al., 2006)
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:PTN002811717
(GO Reference Genome Project, 2011-)
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding
inferred from biological aspect of ancestor with PANTHER:PTN002811717
(GO Reference Genome Project, 2011-)
Biological Process (11 terms)
Terms Based on Experimental Evidence (10 terms)
CV Term
Evidence
References
involved_in dendrite morphogenesis
inferred from mutant phenotype
(Iyer et al., 2013)
involved_in embryonic development via the syncytial blastoderm
inferred from mutant phenotype
(Escudero et al., 2005)
involved_in eye development
inferred from mutant phenotype
(Tsuda et al., 2006)
involved_in larval somatic muscle development
inferred from expression pattern
(Dobi et al., 2014)
inferred from mutant phenotype
(Dobi et al., 2014)
involved_in negative regulation of compound eye cone cell fate specification
inferred from mutant phenotype
(Tsuda et al., 2006)
involved_in negative regulation of transcription by RNA polymerase II
inferred from direct assay
(Tsuda et al., 2006)
involved_in peripheral nervous system development
inferred from mutant phenotype
(Escudero et al., 2005)
inferred from mutant phenotype
(Kania et al., 1995)
involved_in positive regulation of transcription by RNA polymerase II
inferred from mutant phenotype
(Escudero et al., 2005)
involved_in progression of morphogenetic furrow involved in compound eye morphogenesis
inferred from mutant phenotype
(Tsuda et al., 2006)
involved_in sensory organ development
inferred from mutant phenotype
(Escudero et al., 2005)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in regulation of transcription by RNA polymerase II
inferred from biological aspect of ancestor with PANTHER:PTN002811717
(GO Reference Genome Project, 2011-)
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in nucleus
inferred from high throughput direct assay
(Sarov et al., 2016)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
located_in nucleus
inferred by curator from GO:0000981
(Escudero et al., 2005)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Snapshot
charlatan (chn) encodes a C2H2 zinc-finger transcriptional factor that regulates multiple genes, including emc, hry, ac and Delta. It functions in sensory neurons, photoreceptors, blood cells, muscle precursors and intestinal precursors. [Date last reviewed: 2018-09-20]
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)
Probable transcription factor involved in the development of the adult pattern of macrochaetae. Required for accumulation of achaete (ac) and scute (sc) in proneural clusters. Probably acts by binding to the proneural cluster-specific enhancers of the ac/sc complex and increasing enhancer efficiency, thereby acting as a stimulator of ac/sc expression in proneural clusters. Also required for correct development of the embryonic/larval peripheral nervous system (PNS).
(UniProt, Q7YU81)
Summary (Interactive Fly)

zinc finger transcription factor - facilitates accumulation of proneural proteins Achaete and Scute by forming a transcriptional stimulatory loop

Gene Model and Products
Number of Transcripts
9
Number of Unique Polypeptides
7

Please see the JBrowse view of Dmel\chn 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
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q7YU81)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

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

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

Gene model reviewed during 5.50

Sequence Ontology: Class of Gene
gene_with_edited_transcript
(Graveley et al., 2011)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
chn-RA
FBtr0087415
NM_137169
5132
1108
chn-RB
FBtr0087416
NM_206119
4075
1108
chn-RC
FBtr0111006
NM_001043082
4393
1214
chn-RD
FBtr0111007
NM_001043081
2304
640
chn-RE
FBtr0305213
NM_001259401
5657
1283
chn-RF
FBtr0305214
NM_001259402
5534
1286
chn-RG
FBtr0305215
NM_001259403
5666
1286
chn-RH
FBtr0305216
NM_001259404
5459
1217
chn-RI
FBtr0305217
NM_001259405
4468
572
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
UniProt
RefSeq ID
GenBank
chn-PA
FBpp0086546
119.9
1108
9.91
NP_611013
AAF58171
chn-PB
FBpp0086547
119.9
1108
9.91
NP_995841
AAS64853
chn-PC
FBpp0110305
130.3
1214
9.75
Q7YU81
NP_001036547
ABI31096
chn-PD
FBpp0110306
66.9
640
9.05
NP_001036546
ABI31095
chn-PE
FBpp0293743
137.0
1283
9.80
A0A0B4K7Z6
NP_001246330
AFH08084
chn-PF
FBpp0293744
137.3
1286
9.80
A0A0B4K7A3
NP_001246331
AFH08085
chn-PG
FBpp0293745
137.3
1286
9.80
A0A0B4K7A3
NP_001246332
AFH08086
chn-PH
FBpp0293746
130.6
1217
9.75
A0A0B4K876
NP_001246333
AFH08087
chn-PI
FBpp0293747
60.3
572
8.83
A0A0B4K7Q9
NP_001246334
AFH08088
Polypeptides with Identical Sequences

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

1108 aa isoforms: chn-PA, chn-PB
1286 aa isoforms: chn-PF, chn-PG
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\chn 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
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.87

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
anlage in statu nascendi
(Fisher et al., 2012)
central brain anlage in statu nascendi
(Fisher et al., 2012)
dorsal ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
head mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
trunk mesoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
ventral ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
visual anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
antennal anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
dorsal head epidermis anlage in statu nascendi

Comment: reported as procephalic ectoderm anlage in statu nascendi

(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal ectoderm
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
mesectoderm
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
ventral nerve cord primordium

Comment: reported as ventral nerve cord anlage

(Fisher et al., 2012)
embryonic stage 9 -- 10
antennal primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
central brain primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
visual primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
dorsal ectoderm
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
mesectoderm
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 11 -- 12
Bolwig organ primordium

Comment: reported as larval eye primordium

(Fisher et al., 2012)
cardiogenic mesoderm
(Fisher et al., 2012)
central brain primordium
(Fisher et al., 2012)
dorsal epidermis primordium
(Fisher et al., 2012)
dorsal pharyngeal muscle primordium
(Fisher et al., 2012)
embryonic central brain glial cell
(Fisher et al., 2012)
embryonic central brain neuron
(Fisher et al., 2012)
embryonic neuroblast of ventral nerve cord primordium
(Fisher et al., 2012)
embryonic optic lobe primordium
(Fisher et al., 2012)
lateral cord glial cell
(Fisher et al., 2012)
lateral cord neuron
(Fisher et al., 2012)
longitudinal visceral muscle primordium
(Fisher et al., 2012)
procephalic neuroblast
(Fisher et al., 2012)
somatic muscle primordium
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
ventral epidermis primordium
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
visceral muscle primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
dorsal sensory complex proper primordium

Comment: reported as dorsal/lateral sensory complexes

(Fisher et al., 2012)
embryonic brain
(Fisher et al., 2012)
embryonic central brain neuron
(Fisher et al., 2012)
embryonic head epidermis
(Fisher et al., 2012)
embryonic head sensory system
(Fisher et al., 2012)
embryonic/larval nervous system
(Fisher et al., 2012)
lateral cord neuron
(Fisher et al., 2012)
larval ventral nerve cord
(Fisher et al., 2012)
ventral sensory complex primordium
(Fisher et al., 2012)
embryonic optic lobe primordium
(Fisher et al., 2012)
larval midline neuron
(Kearney et al., 2004)
embryonic stage 15
ventral nerve cord
(Magalhaes et al., 2007)
embryonic brain | restricted
(Magalhaes et al., 2007)
third instar larval stage
eye disc morphogenetic furrow
(Klebes et al., 2002)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 16
neuron of embryonic/larval central nervous system
(Yamasaki et al., 2011)
neuron of embryonic/larval peripheral nervous system
(Yamasaki et al., 2011)
third instar larval stage
Johnston organ
(Yamasaki et al., 2011)
eye disc
(Yamasaki et al., 2011)
eye disc morphogenetic furrow
(Yamasaki et al., 2011)
presumptive ocellus
(Yamasaki et al., 2011)
mechanosensory sensory organ
(Yamasaki et al., 2011)
chordotonal organ precursor cell of leg disc
(Yamasaki et al., 2011)
sensory mother cell of wing disc
(Yamasaki et al., 2011)
wing margin
(Yamasaki et al., 2011)
lobula
(Yamasaki et al., 2011)
larval central brain
(Yamasaki et al., 2011)
larval ventral nerve cord
(Yamasaki et al., 2011)
adult stage
adult brain | restricted
(Yamasaki et al., 2011)
photoreceptor neuron
(Yamasaki et al., 2011)
Additional Descriptive Data

chn protein is expressed in neurons in the central and peripheral nervous system during embryogenesis. In the third instar larval antennal disc, it is expressed in Johnston's organ. In the eye disc, chn is strongly expressed at the morphogenetic furrow and in ocellar precursors. It is also found at lower levels in differentiating photoreceptor cells. In the leg disc, chn is detected in many sensory organ precursor cells (SOPs) such as mechanosensory and chordotonal organs. It is also found in SOPs in wing discs in the wing margin and in the dorsocentral region. In the larval brain, chn is expressed in the lobula of the optic lobe, in the central brain, and in the ventral nerve cord. In adult brain, staining is observed in photoreceptor neurons and in several brain regions.

(Yamasaki et al., 2011)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in nucleus
inferred from high throughput direct assay
(Sarov et al., 2016)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\chn in JBrowse
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
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
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) 7-8
  • Stages(s) 9-10
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 32 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 13 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of chn
Transgenic constructs containing regulatory region of chn
Aberrations (Deficiencies and Duplications) ( 8 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal, with Scer\GAL4da.G32
lethal | heat sensitive, with Scer\GAL4C-765
lethal | recessive
lethal - all die during embryonic stage
lethal - all die during embryonic stage | recessive
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4da.G32
viable, with Scer\GAL4Mef2.PR
viable, with Scer\GAL4pnr-MD237
Other Phenotypes
Allele
abnormal neuroanatomy, with Scer\GAL4ppk.1.9
abnormal neuroanatomy | embryonic stage | recessive
abnormal neurophysiology | adult stage | somatic clone
some die during embryonic stage
some die during embryonic stage | recessive
visible, with Scer\GAL4ap-md544
visible, with Scer\GAL4Bx-MS1096
visible, with Scer\GAL4C-765
visible, with Scer\GAL4MS248
visible, with Scer\GAL4sca-537.4
visible, with Scer\GAL4unspecified
visible | recessive
visible | recessive | somatic clone
visible | somatic clone
Phenotype manifest in
Allele
abdominal anterior ventral multidendritic neuron vdaa, with Scer\GAL4ppk.1.9
adult head bristle | ectopic, with Scer\GAL4MS248
anterior notopleural bristle, with Scer\GAL4sca-537.4
anterior postalar bristle, with Scer\GAL4sca-537.4
anterior supraalar bristle, with Scer\GAL4ap-md544
chaeta | increased number, with Scer\GAL4Bx-MS1096
chordotonal organ & neuron
chordotonal organ | lateral
cone cell, with Scer\GAL4GMR.PF
dorsal mesothoracic disc & sensory mother cell | ectopic, with Scer\GAL4Bx-MS1096
dorsal mesothoracic disc & sensory mother cell | ectopic, with Scer\GAL4MS248
dorsal mesothoracic disc & sensory mother cell | somatic clone
dorsocentral bristle, with Scer\GAL4ap-md544
dorsocentral bristle, with Scer\GAL4MS248
dorsocentral bristle, with Scer\GAL4sca-537.4
embryonic/larval hemocyte | third instar larval stage, with Scer\GAL4Pxn.PS
embryonic/larval somatic muscle cell
embryonic/larval somatic muscle cell (with Df(2R)ED2426)
embryonic abdominal dorsal sensory organ precursor cluster
embryonic abdominal ventral sensory organ precursor cluster group
external sensory organ | ectopic, with Scer\GAL4Eq
eye, with Scer\GAL4GMR.PF
eye | somatic clone
eye disc morphogenetic furrow (with chn1)
eye disc morphogenetic furrow (with chn9)
eye photoreceptor cell | somatic clone
larval dorsal multidendritic neuron ddaC, with Scer\GAL4ppk.1.9
macrochaeta, with Scer\GAL4unspecified
macrochaeta | ectopic, with Scer\GAL4C-765
macrochaeta | somatic clone
mesothoracic bristle
mesothoracic tergum, with Scer\GAL4Bx-MS1096
mesothoracic tergum, with Scer\GAL4Eq
mesothoracic tergum, with Scer\GAL4MS248
mesothoracic tergum & macrochaeta, with Scer\GAL4ap-md544
mesothoracic tergum & macrochaeta, with Scer\GAL4sca-537.4
mesothoracic tergum & macrochaeta | ectopic, with Scer\GAL4MS248
mesothoracic tergum & macrochaeta | somatic clone
metathoracic bristle | ectopic, with Scer\GAL4Bx-MS1096
microchaeta | ectopic, with Scer\GAL4C-765
microchaeta | somatic clone
posterior notopleural bristle, with Scer\GAL4sca-537.4
posterior postalar bristle, with Scer\GAL4ap-md544
posterior postalar bristle, with Scer\GAL4sca-537.4
posterior supraalar bristle, with Scer\GAL4ap-md544
posterior supraalar bristle, with Scer\GAL4sca-537.4
presumptive embryonic/larval peripheral nervous system
retina | somatic clone
rhabdomere of eye photoreceptor cell | somatic clone
scutellar bristle, with Scer\GAL4ap-md544
scutellar bristle, with Scer\GAL4MS248
scutellar bristle, with Scer\GAL4pnr-MD237
scutellar bristle, with Scer\GAL4sca-537.4
scutellar bristle | somatic clone
sensory neuron | embryonic stage
trichogen cell | somatic clone
wing & chaeta | ectopic, with Scer\GAL4Bx-MS1096
wing & chaeta | ectopic, with Scer\GAL4C-765
wing disc (with chn1)
wing disc (with chn9)
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (4)
Hsap\RBAK
1 of 14
Yes
No
Hsap\ZNF510
1 of 14
Yes
No
Hsap\ZNF518A
1 of 14
Yes
No
Hsap\ZNF518B
1 of 14
Yes
Yes
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (5)
Rnor\LOC100910577
1 of 14
Yes
Yes
Rnor\Rbak
1 of 14
Yes
No
Rnor\Rest
1 of 14
Yes
No
Rnor\Zfp518a
1 of 14
Yes
Yes
Rnor\Zfp518b
1 of 14
Yes
Yes
Mus musculus (laboratory mouse) (8)
Mmus\Rbak
1 of 14
Yes
No
Mmus\Zfp119a
1 of 14
Yes
Yes
Mmus\Zfp119b
1 of 14
Yes
Yes
Mmus\Zfp518a
1 of 14
Yes
Yes
Mmus\Zfp518b
1 of 14
Yes
Yes
Mmus\Zfp938
1 of 14
Yes
Yes
Mmus\Zfp959
1 of 14
Yes
Yes
Mmus\Zfy1
1 of 14
Yes
Yes
Xenopus tropicalis (Western clawed frog) (3)
Xtro\rest
1 of 13
Yes
Yes
Xtro\znf518a
1 of 13
Yes
Yes
Xtro\znf518b
1 of 13
Yes
Yes
Danio rerio (Zebrafish) (1)
Drer\rest
1 of 14
Yes
No
Caenorhabditis elegans (Nematode, roundworm) (0)
Anopheles gambiae (African malaria mosquito) (0)
Arabidopsis thaliana (thale-cress) (0)
Saccharomyces cerevisiae (Brewer's yeast) (0)
Schizosaccharomyces pombe (Fission yeast) (0)
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:chn. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Human Disease Associations
FlyBase Human Disease Model Reports
    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 ( 1 )
    Allele
    Disease
    Interaction
    References
    chnKK105251
    exacerbates  epilepsy
    modeled by parabss1
    (Howlett et al., 2013)
    Disease Associations of Human Orthologs (via DIOPT v9.1 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
    Show neighbor-neighbor interactions:
    Show/hide secondary interactors 
    (data from AllianceMine provided by esyN)
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    Other Interaction Browsers
    View in FlyBase Interactions Browser   View in MIST tool (external link)
    Please see the Physical Interaction reports below for full details
    RNA-RNA
    Physical Interaction
    Assay
    References
    chn - mir-124
    quantitative reverse transcription pcr
    (Sun et al., 2012)
    protein-protein
    Physical Interaction
    Assay
    References
    chn - Ada2b
    anti tag coimmunoprecipitation, peptide massfingerprinting
    (Weake et al., 2011)
    chn - CG2116
    two hybrid array
    (Shokri et al., 2019)
    chn - CG6654
    two hybrid array
    (Shokri et al., 2019)
    chn - CG6769
    two hybrid array
    (Shokri et al., 2019)
    chn - CG6813
    two hybrid array
    (Shokri et al., 2019)
    chn - CoRest
    anti tag coimmunoprecipitation, anti tag western blot
    (Tsuda et al., 2006)
    chn - Deaf1
    two hybrid array
    (Shokri et al., 2019)
    chn - E(spl)mδ-HLH
    two hybrid array
    (Shokri et al., 2019)
    chn - Ets21C
    two hybrid array
    (Shokri et al., 2019)
    chn - Hr78
    two hybrid array
    (Shokri et al., 2019)
    chn - Irbp18
    two hybrid array
    (Shokri et al., 2019)
    chn - OdsH
    two hybrid array
    (Shokri et al., 2019)
    chn - Rel
    two hybrid array
    (Shokri et al., 2019)
    chn - Set
    anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based
    (Rhee et al., 2014)
    chn - gcm
    two hybrid
    (Jacques et al., 2009)
    chn - mbf1
    two hybrid array
    (Shokri et al., 2019)
    chn - pzg
    two hybrid array
    (Shokri et al., 2019)
    Summary of Genetic Interactions
    esyN Network Diagram
    Show/hide secondary interactors 
    (data from AllianceMine provided by esyN)
    esyN Network Key:
    Suppression
    Enhancement
    Other Interaction Browsers
    View in FlyBase Interactions Browser   View in MIST tool (external link)
    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    chn
    enhanceable
    ebi
    (Tsuda et al., 2006)
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    N
    enhanceable
    chn
    (Escudero et al., 2005)
    para
    enhanceable
    chn
    (Howlett et al., 2013)
    peb
    suppressible
    chn
    (Wilk et al., 2004)
    phyl
    enhanceable
    chn
    (Pi et al., 2011)
    pnr
    enhanceable
    chn
    (Escudero et al., 2005)
    sc
    suppressible
    chn
    (Escudero et al., 2005)
    External Data
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2R
    Recombination map
    2-74
    Cytogenetic map
    51E1-51E2
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    51E1-51E2
    Limits computationally determined from genome sequence between P{lacW}Rpn6k00103 and P{PZ}chn02064
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    51E1-51E2
    (determined by in situ hybridisation)
    (Spradling et al., 1999)
    51E-51F
    (determined by in situ hybridisation)
    (Kania et al., 1995)
    51E1-51E2
    51E2--3
    (BDGP Project Members, 1994-1999)
    Experimentally Determined Recombination Data
    Location

    2-74

    (FlyBase, 2016)

    2-77.7

    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (100)
    Genomic Clones (29)
    cDNA Clones (69)
     

    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 JBrowse 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
    Antibody Information
    Laboratory Generated Antibodies
     

    polyclonal

    (Yamasaki et al., 2021)
    Commercially Available Antibodies
     
    Cell Line Information
    Publicly Available Cell Lines
     
      Other Stable Cell Lines
       
        Other Comments

        chn represses the transcription of Dl by binding directly to consensus sequences at the Dl locus.

        (Tsuda et al., 2006)

        chn is required for the proper development of the embryonic peripheral nervous system and for the normal pattern of macrochaetae in the adult notum. chn and ac/sc appear to form a mutually autostimulatory loop that enhances accumulation of ac/sc protein in the proneural clusters of the notum macrochaetae.

        (Escudero et al., 2005)

        chn encodes a C2H2-type Zinc finger protein.

        (Tsuda et al., 2005)

        The ebi/Smr co-repressor complex associates with Su(H) protein and represses chn transcription by competing with the activation complex including N protein intra cellular domain and Su(H) for occupancy of the chn promoter.

        (Tsuda et al., 2005)

        chn acts as a repressor of Dl expression.

        (Tsuda et al., 2005)
        Relationship to Other Genes
        Source for database merge of

        Source for merge of: chn EPIL6

        (FlyBase, 1996-)

        Source for merge of: chn anon- EST:Liang-1.13

        (Ashburner, 2004.6.30)

        Source for merge of: chn CG11798

        (Escudero, 2004.3.11)
        Additional comments

        cDNA analysis suggests that the chn and bda genes share a common short 5' region, but have non-overlapping coding sequences.

        (Escudero et al., 2005)
        Nomenclature History
        Source for database identify of

        Source for identity of: chn taco

        (Tsuda, 2005.3.11)
        Nomenclature comments
        Etymology
        Synonyms and Secondary IDs (13)
        Reported As
        Symbol Synonym
        CG11798
        (National Institute of Genetics Fly Stocks, 2022-, Hosono et al., 2015, Keleman et al., 2009.8.5, Lebo et al., 2009, Perkins et al., 2009.3.31, Magalhaes et al., 2007, Quinones-Coello, 2007, Yi et al., 2007, Molnar et al., 2006, Johansson et al., 2005, Reeves and Posakony, 2005, Ashburner, 2004.6.30, Kearney et al., 2004, Kim et al., 2004, Klebes et al., 2002)
        Chn
        (Nil et al., 2019, Honti et al., 2014, Wang et al., 2014, Rebeiz et al., 2011, Pickup et al., 2009)
        EPIL#6
        (Escudero and Modolell, 2001)
        EPIL6
        anon-EST:Liang-1.13
        chl
        (Kim-Jo et al., 2019)
        chn
        (Aughey et al., 2023, Bukharina et al., 2023, Ding et al., 2022, Winbush and Singh, 2021, Geigges et al., 2020, Rust et al., 2020, Chai et al., 2019, Shokri et al., 2019, Karaiskos et al., 2017, Liu et al., 2017, Transgenic RNAi Project members, 2017-, Clandinin and Owens, 2016-, Sarov et al., 2016, Baëza et al., 2015, Golubyatnikov et al., 2015, Huang et al., 2015, Amcheslavsky et al., 2014, Ashwal-Fluss et al., 2014, Dobi et al., 2014, de Celis et al., 2013.9.11, Howlett et al., 2013, Iyer et al., 2013, Sen et al., 2013, Domanitskaya and Schüpbach, 2012, Japanese National Institute of Genetics, 2012.5.21, Spokony and White, 2012.11.14, Sun et al., 2012, Hwang and Rulifson, 2011, Pi et al., 2011, Weake et al., 2011, Yamasaki et al., 2011, Arancio et al., 2010, Stofanko et al., 2010, Song et al., 2009, FlyBase Curators, 2008-, Stofanko et al., 2008, Quinones-Coello, 2007, Yi et al., 2007, Zhang et al., 2007, Molnar et al., 2006, Tsuda et al., 2006)
        clone 1.13
        (Liang and Biggin, 1998)
        l(2)02064
        (Dworak et al., 2001)
        l(2)k04218
        (Dworak et al., 2001)
        taco
        (Tsuda et al., 2005)
        Name Synonyms
        Charlatan
        (Csordás et al., 2021, Wang et al., 2014, Jacques et al., 2009, Pickup et al., 2009, Yi et al., 2007)
        charlatan
        (Ramond et al., 2020, Golubyatnikov et al., 2015, Howlett et al., 2013, Manning et al., 2012, Pi et al., 2011, Lebo et al., 2009, Stofanko et al., 2008, Tsuda et al., 2006, Escudero et al., 2005)
        Secondary FlyBase IDs
        • FBgn0010506
        • FBgn0026007
        • FBgn0033992
        • FBgn0046116
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        Study result (0)
        Result
        Result Type
        Title
        External Crossreferences and Linkouts ( 82 )
        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/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
        UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
        UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
        Other crossreferences
        AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
        BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
        DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
        EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
        FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
        FlyMine - An integrated database for Drosophila genomics
        InterPro - A database of protein families, domains and functional sites
        KEGG Genes - Molecular building blocks of life in the genomic space.
        MARRVEL_MODEL - MARRVEL (model organism gene)
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
        DroID - A comprehensive database of gene and protein interactions.
        DRSC - Results frm RNAi screens
        Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
        Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
        Flygut - An atlas of the Drosophila adult midgut
        iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
        Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        References (120)