FlyBase Gene Report: Dmel\dikar

General Information

Symbol

Dmel\dikar

Species

D. melanogaster

Name

dikar

Annotation Symbol

CG42799

Feature Type

protein_coding_gene

FlyBase ID

FBgn0261934

Gene Model Status

Current

Stock Availability

9 publicly available

Gene Summary

dikar (dikar) encodes a protein involved in long-term memory. [Date last reviewed: 2019-09-12] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

65C3-65C3

Sequence location

3L:6,728,800..6,743,164 [-]

Recombination map

3-17

RefSeq locus

NT_037436 REGION:6728800..6743164

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (5 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables histone binding

inferred from biological aspect of ancestor with PANTHER:PTN001424994

(GO Reference Genome Project, 2011-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in long-term memory

inferred from mutant phenotype

(Akalal et al., 2011)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in heterochromatin formation

inferred from biological aspect of ancestor with PANTHER:PTN001424994

(GO Reference Genome Project, 2011-)

involved_in regulation of DNA-templated transcription

inferred from biological aspect of ancestor with PANTHER:PTN001424994

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR028938

(InterPro Project Members, 2004-)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of RSF complex

inferred from electronic annotation with InterPro:IPR028938

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN001023524

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

dikar (dikar) encodes a protein involved in long-term memory. [Date last reviewed: 2019-09-12]

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\dikar 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 M9PEI6)

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

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

Gene model reviewed during 5.56

Stop-codon suppression (UAG) postulated; FBrf0216884.

Gene model reviewed during 5.44

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 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

dikar-RB

FBtr0303748

NM_206285

1578

342

dikar-RC

FBtr0303749

NM_168179

9798

3080

dikar-RD

FBtr0303750

NM_001202125

11586

3222

dikar-RE

FBtr0303751

NM_139798

3009

342

dikar-RF

FBtr0330145

NM_001274551

10224

3261

dikar-RG

FBtr0333047

NM_001274552

11160

3080

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

dikar-PB

FBpp0292761

39.5

342

7.50

FBpp0292762

338.2

3080

9.02

FBpp0292763

354.0

3222

9.17

FBpp0292764

39.5

342

7.50

FBpp0303178

357.6

3261

9.11

FBpp0305261

338.2

3080

9.02

Q8IQ71

NP_001261481

AGB94176

Polypeptides with Identical Sequences

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

342 aa isoforms: dikar-PB, dikar-PE

3080 aa isoforms: dikar-PC, dikar-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

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\dikar 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).

0.30

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 | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | ubiquitous

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

day 5 of adulthood | male -- day 7 of adulthood | male

spermatozoon

(Wasbrough et al., 2010)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\dikar in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\dikar

View exonic expression by tissue for Dmel\dikar

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

FBgn0261934

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

38747/tissue=All

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

FBgn0261934

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

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

FBgn0261934

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

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 10 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of dikar

Transgenic constructs containing regulatory region of dikar

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3L)Dfvvl4

(Sotillos et al., 2010)

Inferred from location ( 5 )

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

viable

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

dikar^GD10880

viable, with Scer\GAL4^Mef2.PR

dikar^GD10880

viable, with Scer\GAL4^pnr-MD237

dikar^GD10880

viable, with Scer\GAL4^tin.CΔ4

dikar^GD10880

Sterility

Allele

fertile

dikar^d02315

Other Phenotypes

Allele

abnormal memory

dikar^E3145

abnormal memory | dominant

dikar^E3145

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (18)

Hsap\CECR2

5 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (12)

Rnor\Cecr2

6 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (18)

Mmus\Cecr2

7 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (8)

Xtro\cecr2

5 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\phf5a

1 of 13

Xtro\tspan2

1 of 13

Danio rerio (Zebrafish) (16)

Drer\cecr2

8 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (13)

Cele\athp-2

1 of 14

Yes

Cele\baz-2

1 of 14

Yes

Cele\C29F9.5

1 of 14

Yes

Cele\C29F9.6

1 of 14

Yes

Cele\C49F5.5

1 of 14

Yes

Cele\cbp-2

1 of 14

Yes

Cele\cbp-3

1 of 14

Yes

Cele\F13C5.2

1 of 14

Yes

Cele\F22F1.3

1 of 14

Yes

Cele\pcaf-1

1 of 14

Yes

Cele\sepa-1

1 of 14

Yes

Cele\swsn-9

1 of 14

Yes

Cele\ZK1010.10

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (8)

Agam\AgaP_AGAP005187

9 of 12

Yes

Agam\AgaP_AGAP005186

8 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (29)

Atha\AT1G18950

2 of 13

Yes

Atha\AT5G25580

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\BT2

1 of 13

Yes

Atha\BT3

1 of 13

Atha\BT4

1 of 13

Yes

Atha\BT5

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (9)

Scer\BDF1

1 of 13

Yes

Scer\BDF2

1 of 13

Yes

Scer\GCN5

1 of 13

Yes

Scer\ITC1

1 of 13

Yes

Scer\RSC1

1 of 13

Yes

Scer\RSC2

1 of 13

Yes

Scer\RSC4

1 of 13

Yes

Scer\SPT7

1 of 13

Yes

Scer\YPL216W

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (7)

Spom\bdc1

1 of 12

Yes

Spom\bdf1

1 of 12

Yes

Spom\gcn5

1 of 12

Yes

Spom\rsc1

1 of 12

Yes

Spom\rsc4

1 of 12

Yes

Spom\SPAC631.02

1 of 12

Yes

Spom\spt7

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:dikar. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (12)

Acf

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Lpt

1 of 13

nej

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

tou

1 of 13

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 ( 0 )

Allele

Disease

Interaction

References

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?

CECR2; CECR2 histone acetyl-lysine reader

5 of 14

607576

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

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

dikar - Iswi

experimental knowledge based

(Guruharsha et al., 2011)

Summary of Genetic Interactions

Interaction Browsers

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.

FBgn0261934

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

38747

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene_with_stop_codon_read_through

(Jungreis et al., 2011)

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-17

Cytogenetic map

65C3-65C3

Sequence location

3L:6,728,800..6,743,164 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

65C3-65C3

Limits computationally determined from genome sequence between P{PZ}l(3)02094⁰²⁰⁹⁴ and P{lacW}l(3)L4060^L4060

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-17

(FlyBase, 2016)

3-15.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (9)

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

Bloomington

19174

w¹¹¹⁸; P{XP}dikar^d02315

58280

y¹ v¹; P{TRiP.HMJ22365}attP40

13156

y¹ w^67c23; P{SUPor-P}dikar^KG00884 ry⁵⁰⁶

32397

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00391}attP2/TM3, Sb¹

Kyoto

104695

y^* w^*; P{GawB}dikar^NP4487 / TM6, P{UAS-lacZ.UW23-1}UW23-1

NIG-Fly

HMJ22365

y¹ v¹; P{TRiP.HMJ22365}attP40/CyO

HMS00391

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00391}attP2/TM3, Sb¹

VDRC

v100383

P{KK106123}VIE-260B

v107312

P{KK108328}VIE-260B

Genomic Clones (23)

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

cDNA Clones (23)

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

DPiM_LD29048

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.

FBgn0261934

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0261934

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Source for merge of: dikar CG32394

(FlyBase Genome Annotators, 2010, Keuling et al., 2007)

Additional comments

Annotations CG32393 and CG32394 merged as CG42799 in release 5.30 of the genome annotation.

(FlyBase Genome Annotators, 2010)

Annotation CG10115 split into CG32393 and CG32394 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Given the name "dikar", after one of Pavlov's dogs.

(Dubnau et al., 2003)

Synonyms and Secondary IDs (6)

Reported As

Symbol Synonym

CG10115

(Huntley and Golding, 2004, Dubnau et al., 2003)

CG32393

(Keleman et al., 2009.8.5, Berger et al., 2008)

CG32394

(Ashwal-Fluss et al., 2014, Smibert et al., 2012, Jungreis et al., 2011, Wasbrough et al., 2010, Keleman et al., 2009.8.5, Keuling et al., 2007)

CG42799

(FlyBase Genome Annotators, 2010, Ni et al., 2010.12.1)

Dikar

(Zhang et al., 2014)

dikar

(Pang et al., 2021, Robles-Murguia et al., 2020, Berger et al., 2008, Keuling et al., 2007)

Name Synonyms

Dikar

(Dubnau et al., 2003)

dikar

(Tully and Dubnau, 2003)

Secondary FlyBase IDs

FBgn0052393
FBgn0035712
FBgn0052394

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 60 )

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.

38747

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.

M9PEI6

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.

M9PEI6

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0261934

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

38747/tissue=All

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

FBgn0261934

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

FBgn0261934

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

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

dme:Dmel_CG42799

MARRVEL_MODEL - MARRVEL (model organism gene)

38747

Linkouts

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

FBgn0261934

DroID - A comprehensive database of gene and protein interactions.

FBgn0261934

DRSC - Results frm RNAi screens

FBgn0261934

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

FBGN0261934

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

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC002957

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

38747

References (42)

The following external sites may use different assemblies or annotations than FlyBase.

0.30

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