FlyBase Gene Report: Dmel\qkr58E-3

General Information

Symbol

Dmel\qkr58E-3

Species

D. melanogaster

Name

quaking related 58E-3

Annotation Symbol

CG3584

Feature Type

protein_coding_gene

FlyBase ID

FBgn0022984

Gene Model Status

Current

Stock Availability

8 publicly available

Gene Summary

quaking related 58E-3 (qkr58E-3) encodes an RNA binding protein that contributes to mRNA splicing and apoptosis. [Date last reviewed: 2019-09-12] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Interactive Fly

Also Known As

kep1, KH domain encompassing protein 1

Key Links

Genomic Location

Cytogenetic map

58D7-58D8

Sequence location

2R:22,409,208..22,411,545 [-]

Recombination map

2-99

RefSeq locus

NT_033778 REGION:22409208..22411545

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 (6 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables RNA binding

inferred from direct assay

(Di Fruscio et al., 1998)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR004087

(InterPro Project Members, 2004-)

enables RNA binding

inferred from electronic annotation with InterPro:IPR036612

(InterPro Project Members, 2004-)

inferred from sequence model

(Ding et al., 2010)

Biological Process (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in apoptotic process

inferred from mutant phenotype

(Di Fruscio et al., 2003)

inferred from genetic interaction with FLYBASE:rpr; FB:FBgn0011706

(Di Fruscio et al., 2003)

inferred from physical interaction with FLYBASE:Dredd; FB:FBgn0020381

(Di Fruscio et al., 2003)

involved_in regulation of alternative mRNA splicing, via spliceosome

inferred from mutant phenotype

(Katzenberger et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in regulation of alternative mRNA splicing, via spliceosome

inferred from biological aspect of ancestor with PANTHER:PTN000879731

(GO Reference Genome Project, 2011-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in nuclear speck

inferred from direct assay

(Ding et al., 2010)

located_in nucleus

inferred from direct assay

(Di Fruscio et al., 1998)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

quaking related 58E-3 (qkr58E-3) encodes an RNA binding protein that contributes to mRNA splicing and apoptosis. [Date last reviewed: 2019-09-12]

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\qkr58E-3 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 O44434)

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

Gene model reviewed during 5.49

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

qkr58E-3-RB

FBtr0290254

NM_057958

1433

317

qkr58E-3-RC

FBtr0307214

NM_001259531

1584

317

qkr58E-3-RD

FBtr0339538

NM_001299792

1729

317

Additional Transcript Data and Comments

Reported size (kB)

2.0, 1.6, 1.3, 0.6 (northern blot)

(Di Fruscio et al., 1998)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

qkr58E-3-PB

FBpp0288693

36.7

317

9.32

FBpp0298043

36.7

317

9.32

FBpp0308621

36.7

317

9.32

O44434

NP_001286721

AHN56516

Polypeptides with Identical Sequences

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

317 aa isoforms: qkr58E-3-PB, qkr58E-3-PC, qkr58E-3-PD

Additional Polypeptide Data and Comments

Reported size (kDa)

317 (aa)

(Di Fruscio et al., 1998)

Comments

A Myc-epitope-tagged qkr58E-3 protein expressed in HeLa cells migrates with a molecular mass of about 40 kD. qkr58E-3 protein can bind homopolymeric RNA (poly(U)) in vitro, and can associate into homomultimers; the GSG domain is sufficient to mediate both interactions. A GFPFBtr0091350:pb-XRqkr58E-3 fusion protein activates apoptotic pathways in mouse NIH 3T3 and Drosophila S2 cells.

(Di Fruscio et al., 1998)

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\qkr58E-3 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

qkr58E-3_1

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).

0.62

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)

embryonic stage 13 -- 16

organism | ubiquitous

(Fisher et al., 2012)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(Di Fruscio et al., 1998)

adult stage | male

(Di Fruscio et al., 1998)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

oogenesis

nurse cell

(Robard et al., 2006)

follicle cell

(Robard et al., 2006)

Additional Descriptive Data

A GFPFBtr0091350:pb-XRqkr58E-3 fusion protein localizes to the nucleus of mouse NIH 3T3 and Drosophila S2 cells.

(Robard et al., 2006, Di Fruscio et al., 1998)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nuclear speck

inferred from direct assay

(Ding et al., 2010)

located_in nucleus

inferred from direct assay

(Di Fruscio et al., 1998)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\qkr58E-3 in JBrowse

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

View exonic expression by developmental stage for Dmel\qkr58E-3

View exonic expression by tissue for Dmel\qkr58E-3

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

FBgn0022984

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

37559/tissue=All

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

FBgn0022984

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0022984

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

FBgn0022984

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

CG3584

Flygut - An atlas of the Drosophila adult midgut

FBgn0022984

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 7 )

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 qkr58E-3

Transgenic constructs containing regulatory region of qkr58E-3

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(2R)Exel7173

(Ryder, 2004.4.26)

Inferred from location ( 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

viable

qkr58E-3^minus

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

qkr58E-3^GD11020

viable, with Scer\GAL4^Mef2.PR

qkr58E-3^GD11020

viable, with Scer\GAL4^pnr-MD237

qkr58E-3^GD11020

Sterility

Allele

female semi-sterile

qkr58E-3^minus

male fertile

qkr58E-3^null

Other Phenotypes

Allele

abnormal immune response

qkr58E-3^minus

Phenotype manifest in

Allele

dorsal appendage

qkr58E-3^minus

egg

qkr58E-3^minus

eye | ectopic

qkr58E-3^minus

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) (5)

Hsap\KHDRBS3

9 of 14

Yes

7 of 14

7 of 14

3 of 14

2 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) (5)

Rnor\Khdrbs3

10 of 14

Yes

Rnor\Khdrbs1

9 of 14

Yes

Rnor\Khdrbs2

9 of 14

Yes

Rnor\Qk

2 of 14

Rnor\Sf1

2 of 14

Mus musculus (laboratory mouse) (6)

Mmus\Khdrbs3

10 of 14

Yes

9 of 14

8 of 14

2 of 14

2 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (7)

Xtro\khdrbs2

7 of 13

Yes

Xtro\khdrbs3

6 of 13

Xtro\khdrbs1

4 of 13

Xtro\LOC101733520

1 of 13

Yes

Xtro\mrpl41

1 of 13

Xtro\parn

1 of 13

Yes

Xtro\serhl2

1 of 13

Danio rerio (Zebrafish) (8)

Drer\khdrbs1b

8 of 14

Yes

7 of 14

7 of 14

6 of 14

3 of 14

2 of 14

2 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (11)

Cele\B0280.17

2 of 14

Yes

Cele\F54D1.1

2 of 14

Yes

Cele\gld-1

2 of 14

Yes

Cele\K07H8.9

2 of 14

Yes

Cele\sfa-1

2 of 14

Yes

Cele\Y57G11C.36

2 of 14

Yes

Cele\asd-2

1 of 14

Cele\mek-5

1 of 14

Yes

Cele\vamp-7

1 of 14

Cele\Y69A2AR.32

1 of 14

Cele\ZK899.6

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (5)

Agam\AgaP_AGAP003355

4 of 12

Yes

Agam\AgaP_AGAP003356

4 of 12

Yes

Agam\AgaP_AGAP000049

2 of 12

Agam\AgaP_AGAP008975

2 of 12

Agam\AgaP_AGAP012103

1 of 12

Arabidopsis thaliana (thale-cress) (7)

Atha\AT1G09660

4 of 13

Yes

Atha\AT2G38610

4 of 13

Yes

Atha\AT3G08620

4 of 13

Yes

3 of 13

3 of 13

2 of 13

2 of 13

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\MSL5

3 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\bpb1

2 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:qkr58E-3. 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) (9)

CG3927

10 of 13

CG4021

10 of 13

nsr

10 of 13

10 of 13

9 of 13

8 of 13

6 of 13

how

6 of 13

SF1

5 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 ( 3 )

Allele

Disease

Interaction

References

qkr58E-3^EY02038

ameliorates amyotrophic lateral sclerosis type 8

modeled by Vap33^{P58S.UAS.Tag:FLAG}

(Sanhueza et al., 2015)

qkr58E-3^minus

exacerbates tauopathy

modeled by Hsap\MAPT^UAS.cWa

(Feuillette et al., 2020)

qkr58E-3^GD11020

exacerbates amyotrophic lateral sclerosis type 8

modeled by Vap33^{P58S.UAS.Tag:FLAG}

(Sanhueza et al., 2015)

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?

KHDRBS3; KH RNA binding domain containing, signal transduction associated 3

9 of 14

610421

KHDRBS1; KH RNA binding domain containing, signal transduction associated 1

7 of 14

602489

KHDRBS2; KH RNA binding domain containing, signal transduction associated 2

7 of 14

610487

QKI; QKI, KH domain containing RNA binding

3 of 14

609590

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

qkr58E-3 - Atx2

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - CG4612

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - CG6701

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - CG7903

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - Lkb1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - Lrpprc2

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - Rheb

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - S6kII

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - SF2

pull down, autoradiography

(Robard et al., 2006)

qkr58E-3 - SLIRP2

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - Syp

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - Thor

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - Tsc1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - btz

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - foxo

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - gig

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

qkr58E-3 - qkr54B

experimental knowledge based

(Guruharsha et al., 2011)

qkr58E-3 - qkr58E-2

experimental knowledge based

(Guruharsha et al., 2011)

Summary of Genetic Interactions

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

rpr

suppressible

qkr58E-3

(Di Fruscio et al., 2003)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

63175

DroID - A comprehensive database of gene and protein interactions.

FBgn0022984

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

37559

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

PTK6 Regulates Proteins Involved in RNA Processing

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-99

Cytogenetic map

58D7-58D8

Sequence location

2R:22,409,208..22,411,545 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

58D7-58D8

Limits computationally determined from genome sequence between P{lacW}l(2)k13211^k13211&P{EP}EP827 and P{PZ}l(2)rG270^rG270

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

58E-58E

(Fyrberg, 1997.12.16)

58E-58E

(determined by in situ hybridisation)

(Fyrberg et al., 1998)

Experimentally Determined Recombination Data

Location

2-99

(FlyBase, 2016)

2-104.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (8)

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

Bloomington

40966

w^*; qkr58E-3^minus/CyO

15086

y¹ w^67c23; P{EPgy2}qkr58E-3^EY02038

55922

y¹ sc^* v¹ sev²¹; P{TRiP.HMC04209}attP40

FlyORF

F003135

M{UAS-qkr58E-3.ORF.3xHA.GW}ZH-86Fb

NIG-Fly

3584R-2

P{NIG.3584R}2

2RG-1552

y² VhaAC39-1^cho-1 v¹; P{U6-qkr58E-3.NIG.sgRNA}attP40/CyO

VDRC

v26242

w¹¹¹⁸; P{GD11020}v26242

v26243

w¹¹¹⁸; P{GD11020}v26243

Genomic Clones (18)

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

cDNA Clones (107)

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

LD46502

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.

FBgn0022984

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0022984

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Ding et al., 2010, Robard et al., 2006)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

qkr58E-3 appears to regulate apoptosis by influencing the processing of Dredd RNA.

(Di Fruscio et al., 2003)

Relationship to Other Genes

Source for database merge of

Source for merge of: KEP1 qkr58E-3

(FlyBase, 1996-)

Additional comments

Source for merge of KEP1 qkr58E-3 was sequence comparison ( date:000202 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: qkr58E-3 CG3584

(Milshina, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

CG3584

(National Institute of Genetics Fly Stocks, 2022-, Brooks et al., 2015, Chen et al., 2012, Ni et al., 2010.12.1, Zhang et al., 2010, Katzenberger et al., 2009, Brown and Feder, 2005)

KEP1

(Katzenberger et al., 2009, Di Fruscio, 1998.10.1, Di Fruscio et al., 1998)

QKR58E-3

(Sofola et al., 2007)

kep1

(Ding et al., 2010, Yang et al., 2008, Robard et al., 2006, McCall, 2004, Di Fruscio et al., 2003)

qkr58E-3

(Titus et al., 2023, Feuillette et al., 2020, Sapiro et al., 2020, Brooks et al., 2015, Khan et al., 2015, Sanhueza et al., 2015, Stoiber et al., 2015, Kwon et al., 2013, Immonen and Ritchie, 2012, Japanese National Institute of Genetics, 2012.5.21, Friedman et al., 2011, Suyari et al., 2009, FlyBase Curators, 2008-, Brown and Feder, 2005, Conant and Wagner, 2003, Huet et al., 2002)

qkr58e-3

(Sofola et al., 2007)

qrk58E-3

Name Synonyms

KH domain encompassing protein 1

(Di Fruscio et al., 1998)

quaking related 58E-3

Secondary FlyBase IDs

FBgn0025581

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 55 )

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.

37559

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.

O44434

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.

O44434

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0022984

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

37559/tissue=All

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

FBgn0022984

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

FBgn0022984

FlyMine - An integrated database for Drosophila genomics

FBgn0022984

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

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

dme:Dmel_CG3584

MARRVEL_MODEL - MARRVEL (model organism gene)

37559

Linkouts

BioGRID - A database of protein and genetic interactions.

63175

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

FBgn0022984

DroID - A comprehensive database of gene and protein interactions.

FBgn0022984

DRSC - Results frm RNAi screens

FBgn0022984

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

qkr58E-3_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0022984

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0022984

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

CG3584

Flygut - An atlas of the Drosophila adult midgut

FBgn0022984

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0022984

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

37559

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

PTK6 Regulates Proteins Involved in RNA Processing

References (64)

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

0.62

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