FlyBase Gene Report: Dmel\Cda4

General Information

Symbol

Dmel\Cda4

Species

D. melanogaster

Name

Chitin deacetylase-like 4

Annotation Symbol

CG32499

Feature Type

protein_coding_gene

FlyBase ID

FBgn0052499

Gene Model Status

Current

Stock Availability

7 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

Sequence location

X:22,583,634..22,632,710 [-]

Recombination map

1-66

RefSeq locus

NC_004354 REGION:22583634..22632710

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 (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 chitin binding

inferred from electronic annotation with InterPro:IPR002557, InterPro:IPR036508

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

NOT enables chitin deacetylase activity

inferred from key residues

(Dixit et al., 2008)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in carbohydrate metabolic process

inferred from electronic annotation with InterPro:IPR002509, InterPro:IPR011330

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in perivitelline space

inferred from high throughput direct assay

(Lye et al., 2014)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in extracellular region

inferred from electronic annotation with InterPro:IPR002557, InterPro:IPR036508

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Gene Group (FlyBase)

CHITIN DEACETYLASE-LIKE FAMILY

CHITIN BINDING DOMAIN-CONTAINING PROTEINS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

CHITIN DEACETYLASE-LIKE FAMILY -: Chitin deacetylases are secreted enzymes that deacetylate chitin to chitosan. Several members of the chitin deacetylase-like family are thought to be catalytically inactive and may provide a structural role by binding cuticular chitin. (Adapted from FBrf0204376.)
CHITIN BINDING DOMAIN-CONTAINING PROTEINS -: Chitin binding domains are found in certain classes of chitin binding proteins and chitin-active enzymes. (Adapted from FBrf0108362.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Cda4 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 New Section

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9VR69)

If you don't see the viewer to the right, 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.

Comments on Gene Model

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

Gene model reviewed during 5.47

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Cda4-RA

FBtr0077362

NM_167788

1934

486

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

Cda4-PA

FBpp0077054

55.4

486

4.74

NP_728468

AAF50937

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

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

Nucleotide / Polypeptide Records

UniProt

Q9VR69

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Cda4 using the Feature Mapper tool.

External Data

Crossreferences

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 10 -- 11

embryonic/larval tracheal section

(Chung et al., 2011)

embryonic stage 11 -- 12

tracheal dorsal trunk primordium

Comment: reported as dorsal trunk specific anlage

(Fisher et al., 2012)

primary segmental tracheal branch primordium

Comment: reported as primary segmental branch specific anlage

(Fisher et al., 2012)

salivary gland duct primordium

(Fisher et al., 2012)

tracheal primordium

(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

located_in perivitelline space

inferred from high throughput direct assay

(Lye et al., 2014)

Expression Deduced from Reporters

Reporter: PBac{681.P.FSVS-1}Cda4^CPTI002501

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult brain cell body rind

(Knowles-Barley, 2011.8.24)

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Cda4 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\Cda4

View exonic expression by tissue for Dmel\Cda4

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

FBgn0052499

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

33144/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0052499

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0052499

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0052499

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

CG32499

Flygut - An atlas of the Drosophila adult midgut

FBgn0052499

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Cda4

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

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 6 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Cda4

Transgenic constructs containing regulatory region of Cda4

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Lethality

Allele

lethal

Cda4^GD6685

viable

Cda4^e00591

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

viable, with Scer\GAL4^Mef2.PR

viable, with Scer\GAL4^pnr-MD237

Sterility

Allele

fertile

Cda4^e00591

Other Phenotypes

Allele

abnormal neuroanatomy | larval stage

Cda4^GD6685

Phenotype manifest in

Allele

ganglion mother cell | larval stage

Cda4^GD6685

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (5)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\CHI3L1

1 of 15

Yes

Hsap\CHI3L2

1 of 15

Yes

Hsap\CHIA

1 of 15

Yes

Hsap\CHIT1

1 of 15

Yes

Hsap\OVGP1

1 of 15

Yes

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (8)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Chia1

1 of 15

Yes

Mmus\Chil1

1 of 15

Yes

Mmus\Chil3

1 of 15

Yes

Mmus\Chil4

1 of 15

Yes

Mmus\Chil5

1 of 15

Yes

Mmus\Chil6

1 of 15

Yes

Mmus\Chit1

1 of 15

Yes

Mmus\Ovgp1

1 of 15

Yes

Rattus norvegicus (Norway rat) (5)

Rnor\Chi3l1

1 of 13

Yes

Rnor\Chi3l3

1 of 13

Yes

Rnor\Chia

1 of 13

Yes

Rnor\Chit1

1 of 13

Yes

Rnor\RGD1309110

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (3)

Xtro\chia

1 of 12

Yes

Xtro\chit1

1 of 12

Yes

Xtro\LOC548945

1 of 12

Yes

Danio rerio (Zebrafish) (5)

Drer\chia.1

1 of 15

Yes

Drer\chia.2

1 of 15

Yes

Drer\chia.5

1 of 15

Yes

Drer\chia.6

1 of 15

Yes

Drer\ovgp1

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (30)

Cele\F48E3.8

5 of 15

Yes

Cele\lgx-1

3 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Arabidopsis thaliana (thale-cress) (0)

No records found.

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Other Organism Orthologs (via OrthoDB)

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (18)

Gene Symbol

Score

Source

Alignment

3 of 10

2 of 10

2 of 10

2 of 10

2 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

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

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

BioGRID - A database of protein and genetic interactions.

59417

DroID - A comprehensive database of gene and protein interactions.

FBgn0052499

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

Cda4

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-66

Cytogenetic map

20C3-20D1

Sequence location

X:22,583,634..22,632,710 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

20C3-20D1

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

1-66

(FlyBase, 2016)

1-66.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (7)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

58082

y¹ v¹; P{TRiP.HMJ21974}attP40

55486

y¹ w^* Mi{MIC}Cda4^MI10442

65909

y¹ sc^* v¹ sev²¹; P{TRiP.HMC06172}attP40

Kyoto

115549

w¹¹¹⁸ PBac{681.P.FSVS-1}Cda4^CPTI002501

115579

w¹¹¹⁸ PBac{754.P.FSVS-0}Cda4^CPTI003322

VDRC

v107364

P{KK106494}VIE-260B

v44125

w¹¹¹⁸; P{GD6685}v44125

Genomic Clones (18)

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

cDNA Clones (215)

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

RE51076

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.

FBgn0052499

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0052499

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

33144

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: Cda4 CG32499

(Dixit et al., 2008)

Source for database merge of

Source for merge of: CG32499 BcDNA:RE51076

(FlyBase, 1996-)

Source for merge of: CG12447 CG13238 CG9557 CG9558

(FlyBase Genome Annotators, 2002-2003)

Additional comments

Annotations CG12447, CG13238, CG9557 and CG9558 merged as CG32499 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

"CG13238" may correspond to "Scim7". Sequence analysis off ends of P{SUPor-P} in Scim insertion mutant places "Scim7" near/in "CG13238".

(Dobie and Karpen, 2001.4.18)

Source for merge of CG32499 BcDNA:RE51076 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Other Comments

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 34 )

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.

33144

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.

Q9VR69

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

Q9VR69

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.

Q9VR69

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0052499

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

FBgn0052499

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

33144/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0052499

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0052499

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0052499

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

CG32499

Flygut - An atlas of the Drosophila adult midgut

FBgn0052499

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

33144

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

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

Dmel_CG32499

MARRVEL_MODEL - MARRVEL (model organism gene)

33144

modMine - A data warehouse for the modENCODE project

FBgn0052499

Linkouts

BioGRID - A database of protein and genetic interactions.

59417

DroID - A comprehensive database of gene and protein interactions.

FBgn0052499

DRSC - Results frm RNAi screens

FBgn0052499

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0052499

FlyMine - An integrated database for Drosophila genomics

FBgn0052499

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

Cda4

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

BcDNA:RE51076

CG12447

CG13238

(Dobie and Karpen, 2001.4.18)

CG32499

(Hosono et al., 2015, Potier et al., 2014, Huang et al., 2013, Chung et al., 2011, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Lebo et al., 2009, Perkins et al., 2009, Stahl et al., 2007)

CG9557

CG9558

Cda4

(Chandran et al., 2014)

DmCDA4

(Dixit et al., 2008)

Name Synonyms

CG32499

Chitin deacetylase-like 4

(Chandran et al., 2014)

Secondary FlyBase IDs