Gene Dmel\chm

28A-28A

(determined by in situ hybridisation)

(Graba, 1999.9.27)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Molecular Map Data

Gene Order (in direction of increasing cytology)

References

Gene Order (overall orientation not stated)

References

Gene Model & Products

Please see the GBrowse view of Dmel\chm for information on other features

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

chm-RA

FBtr0079443

NM_135273

2919

811

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kD)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

chm-PA

FBpp0079071

89.6

811

9.76

NP_609117

AAF52513

Additional Polypeptide Data & Comments

Reported size (kD)

Comments

External Data

(BDGP Project Members, 2000-)

PANTHER - Protein classification by function, families, and pathways

•

FBgn0028387

Crossreferences

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

•

Zinc finger, C2HC-type (IPR002515)

MOZ/SAS-like protein (IPR002717)

Winged helix repressor DNA-binding (IPR011991)

Acyl-CoA N-acyltransferase (IPR016181)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Maps to

Does NOT map to

Identified with

LD08703

Mapped Features & Mutations

Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here

Type

Symbol & Location

Additional Notes

References

External Data

DEDB - Drosophila exon database: splicing graphs

•

6779

Crossreferences

Expression Data

FlyBase-Curated Data

Transcript and
Protein data

Please see the FlyBase Gene Expression Report for details of gene expression from the literature.

Summary of Transcript Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

External Data & Images

histone acetyltransferase activity

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

•

FBgn0028387

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0028387

GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies

•

FBgn0028387

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal | pupal stage | recessive

Other Phenotypes

Allele

wild-type

chm^hs.PG

suppressor of variegation | dominant, with In(1)w^m4h

chm¹⁴

suppressor of variegation | dominant, with Dp(1;f)γ238

chm¹⁴

suppressor of variegation | dominant, with P{UAS-lacZ.Abd-B.5F24}25,2a

chm¹⁴

Phenotype manifest in

Allele

adult thorax & pharate adult

chm¹⁴

Classical Alleles ( 9 )

For All Classical Alleles Show

Allele of chm	Mutagen	Stocks	Known lesion
chm¹⁴	P-element activity	0	Yes
chm²²¹	P-element activity	0	Yes
chm^BG02254	P-element activity	1	--
chm^d01826	P-element activity	1	--
chm^d05849	P-element activity	1	--
chm^d11149	P-element activity	1	--
chm^e00024	piggyBac transposase	1	--
chm^e02040	piggyBac transposase	1	--
chm^e03060	piggyBac transposase	1	--

Alleles Carried on Transgenic Constructs ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Allele of chm	Mutagen	Stocks	Known lesion
chm^G680.hs	in vitro construct \| regulatory fusion in vitro construct \| amino acid replacement	0	Yes
chm^{G680E.Scer\UAS.T:Hsap\MYC}	in vitro construct \| amino acid replacement	0	Yes
chm^GD1235	in vitro construct \| RNAi in vitro construct \| regulatory fusion	1	Yes
chm^{Scer\UAS.T:Hsap\MYC}	in vitro construct \| regulatory fusion in vitro construct \| coding region fusion	0	Yes
chm^Scer\UAS.cMa	in vitro construct \| regulatory fusion	0	Yes
chm^hs.PG	in vitro construct \| regulatory fusion	0	Yes
chm^{hs.T:Scer\GAL4}	in vitro construct \| coding region fusion in vitro construct \| regulatory fusion	0	Yes

Aneuploid Aberrations

Useful deficiency

Df(2L)spd

Useful duplication

Dp(2;2)C619

Disrupted in

Df(2L)Exel7031

(Ryder, 2004.4.26)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

heat-shock construct

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

PBac{RB}chm^e00024

PBac{RB}chm^e02040

PBac{RB}chm^e03060

P{GT1}BG02510^BG02510

P{GT1}chm^BG02254

P{UASp-YFP.Rab8.Q67L}05

insertion of mobile activating element

P{EP}l(2)k10113^EP1221

P{XP}chm^d01826

P{XP}chm^d05849

P{XP}chm^d11149

Related Comments

Please look at the allele reports for the complete phenotype data

Mutations in chm result in late pupal lethality. Pharate adults have ectopic macrochaetae on the scutellum and on the thorax, and occasionally a large cleft separates the two hemithoraces.

(Graba et al., 1999)

dsRNA has been made from templates generated with primers directed against this gene. RNAi of chm causes an increase in the number of class I da neurons. RNAi also causes alterations in the number of MD neurons and defects in dendrite morphogenesis.

(Parrish et al., 2006)

Gene Ontology: Function, Process & Cellular Component ( 10 )

Molecular Function

CV term

Evidence

References

non-traceable author statement

(Grienenberger et al., 2000)

inferred from sequence or structural similarity

(Grienenberger, 1999.12.23)

inferred from sequence or structural similarity with EMBL:AF074606

(FlyBase, 1992-)

traceable author statement

(McNairn and Gilbert, 2003)

transcription coactivator activity

inferred from direct assay

transcription factor activity

inferred from electronic annotation with InterPro:IPR002515

zinc ion binding

inferred from electronic annotation with InterPro:IPR002515

Biological Process

CV term

Evidence

References

dendrite morphogenesis

inferred from mutant phenotype

(Parrish et al., 2006)

gene silencing

inferred from genetic interaction with FLYBASE:Pc; FB:FBgn0003042

negative regulation of transcription

traceable author statement

(Carrozza et al., 2003)

traceable author statement

(McNairn and Gilbert, 2003)

neuron development

inferred from mutant phenotype

(Parrish et al., 2006)

regulation of transcription, DNA-dependent

inferred from electronic annotation with InterPro:IPR002515

Cellular Component

CV term

Evidence

References

nucleus

inferred from electronic annotation with InterPro:IPR002515

Sequence Ontology: Class of Gene

protein_coding_gene

nuclear_gene

Interactions & Pathways

Summary of Genetic Interactions

Interacts with

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

chm allele

Gene

References

chm¹⁴

ph-p

unspecified

Rpd3

hep

kay

puc

External Data

BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions

•

68722

Orthologs

Genome-wide drosophilid orthologs

Dana\GF15859

Dere\GG10479

Dgri\GH13734

Dmoj\GI23751

Dper\GL25815

Dpse\GA18752

Dsec\GM16444

Dsim\GD23471

Dvir\GJ20948

Dwil\GK24305

Dyak\GE14543

Curated drosophilid orthologs

Dpse\GA18752

(Grienenberger et al., 2000)

InParanoid orthologs - Eukaryotic orthologs

•

ENSANGP00000016540
Anopheles gambiae (Ensembl)
ENSBTAP00000024887
Bos taurus (Ensembl)
ENSCAFP00000024952
Canis familiaris (Ensembl)
ENSCINP00000006520
Ciona intestinalis (Ensembl)
NEWSINFRUP00000140591
Takifugu rubripes (Ensembl)
ENSGALP00000016147
Gallus gallus (Ensembl)
ENSP00000259021
Homo sapiens (Ensembl)
ENSMMUP00000018482
Macaca mulatta (Ensembl)
ENSMODP00000015208
Monodelphis domestica (Ensembl)
ENSPTRP00000015934
Pan troglodytes (Ensembl)
ENSRNOP00000030198
Rattus norvegicus (Ensembl)
GSTENP00024122001
Tetraodon nigroviridis (Ensembl)
ENSXETP00000047415
Xenopus tropicalis (Ensembl)
ZDB-CDNA-040425-564
Danio rerio (Zfin)
ZDB-CDNA-040718-488
Danio rerio (Zfin)
ZDB-GENE-030131-1901
Danio rerio (Zfin)
MGI:2182799
Mus musculus (Informatics)

Functional Complementation between Species

Functionally complements

Scer\SAS2

Inter-Species Misexpression Data

Produces phenotype in

Produces NO phenotype in

Stocks & Reagents

Stocks Listed in FlyBase ( 15 )

P{EP}l(2)k10113^EP1221

More stocks available...

Genomic Clones ( 2 )

cDNA Clones ( 12 )

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

LD08703

Other clones

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Affy Oligo

DRSC - RNAi screening (Harvard): high-throughput cell culture data and design

•

FBgn0028387

GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data

•

FBgn0028387

Antibody Information

Other Information

Discoverer

Etymology

Identification

Position Effect Variegation Data

Relationship to Other Genes

Source for database identity of

Source for identity of: HAT CG5229 Source for identity of HAT CG5229 was sequence comparison (date:000327).

(FlyBase, 1996-)

Source for database merge of

Source for merge of: chm HAT

Additional comments

Comments About Role

chm may have a role in chromatin mediated gene silencing.

(Graba et al., 1999)

chm is required for the maintenance of Hox gene silencing by Pc group proteins.

chm and Rpd3 act as antagonistic cofactors of Jra and kay proteins to modulate JNK-dependent transcription during thorax metamorphosis and JNK-induced apoptosis. chm enhances JNK signaling during thorax closure during metamorphosis and acts positively in the JNK-dependent apoptotic pathway.