FlyBase Gene Report: Dmel\JMJD6

General Information

Symbol

Dmel\JMJD6

Species

D. melanogaster

Name

Jumonji domain containing 6

Annotation Symbol

CG5383

Feature Type

protein_coding_gene

FlyBase ID

FBgn0038948

Gene Model Status

Current

Stock Availability

7 publicly available

Gene Summary

Dioxygenase that can both act as a histone arginine demethylase and a lysyl-hydroxylase (By similarity). Negative regulator of apoptosis; functions upstream of hid possibly by acting on the JNK signaling pathway (PubMed:17522160). Not required for apoptotic cell clearance by macrophages in the developing embryo (PubMed:17522160). May be involved in regulation of chromatin structure, promoting expansion of euchromatin (PubMed:28701701). May be involved in regulation of behavior and circadian rhythms (PubMed:29339751). (UniProt, Q9VD28)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

PSR, dPSR, phosphatidylserine receptor

Key Links

Genomic Location

Cytogenetic map

94A6-94A6

Sequence location

3R:22,360,782..22,362,371 [-]

Recombination map

3-74

RefSeq locus

NT_033777 REGION:22360782..22362371

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 (12 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

enables histone H3R2 demethylase activity

inferred from sequence or structural similarity with UniProtKB:Q6NYC1

(Gene Ontology Curators, 2002-)

enables histone H4R3 demethylase activity

inferred from biological aspect of ancestor with PANTHER:PTN000280518

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with UniProtKB:Q6NYC1

(Gene Ontology Curators, 2002-)

enables P-TEFb complex binding

inferred from biological aspect of ancestor with PANTHER:PTN000280518

(GO Reference Genome Project, 2011-)

enables peptidyl-lysine 5-dioxygenase activity

inferred from sequence or structural similarity with UniProtKB:Q6NYC1

(Gene Ontology Curators, 2002-)

Biological Process (6 terms)

Terms Based on Experimental Evidence (4 terms)

CV Term

Evidence

References

involved_in cell competition in a multicellular organism

inferred from mutant phenotype

(Li and Baker, 2007)

involved_in circadian behavior

inferred from mutant phenotype

(Shalaby et al., 2018)

involved_in negative regulation of apoptotic process

inferred from mutant phenotype

(Krieser et al., 2007)

inferred from genetic interaction with FLYBASE:hid; FB:FBgn0003997

(Krieser et al., 2007)

involved_in negative regulation of JNK cascade

inferred from genetic interaction with FLYBASE:puc; FB:FBgn0243512

(Krieser et al., 2007)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine

inferred from sequence or structural similarity with UniProtKB:Q6NYC1

(Gene Ontology Curators, 2002-)

involved_in phagocytosis

inferred from biological aspect of ancestor with PANTHER:PTN000967831

(GO Reference Genome Project, 2011-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Shalaby et al., 2017, Krieser et al., 2007)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN000280518

(GO Reference Genome Project, 2011-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000280518

(GO Reference Genome Project, 2011-)

located_in nucleus

inferred from sequence or structural similarity with UniProtKB:Q6NYC1

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

JMJC FAMILY HISTONE DEMETHYLASES

Protein Family (UniProt)

Belongs to the JMJD6 family. (Q9VD28)

Protein Signatures (InterPro)

Catalytic Activity (EC/Rhea)

peptidyl-lysine 5-dioxygenase activity
RHEA 58360:

Summaries

Gene Group (FlyBase)

JMJC FAMILY HISTONE DEMETHYLASES -: The Jumonji C (JmjC) domain-containing demethlyases catalyze histone lysine or arginine demethylation through an oxidative reaction that requires iron Fe(II) and α-ketoglutarate as cofactors. (Adapted from FBrf0195283).

Protein Function (UniProtKB)

(UniProt, Q9VD28)

Summary (Interactive Fly)

nuclear protein that acts through the c-Jun-NH2 terminal kinase pathway to alter the sensitivity to cell death

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\JMJD6 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 Q9VD28)

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 5.43

Stop-codon suppression (UGA) postulated; FBrf0216884.

Gene model reviewed during 5.44

Gene model reviewed during 5.49

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

JMJD6-RA

FBtr0084239

NM_142769

1590

408

JMJD6-RB

FBtr0330378

NM_001275903

1590

441

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

JMJD6-PA

FBpp0083632

47.0

408

9.44

FBpp0303404

51.0

441

10.09

A0A0B4KHW1

NP_001262832

AGB96212

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

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\JMJD6 using the Feature Mapper tool.

External Data

Crossreferences

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

PSR_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).

2.26

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Shalaby et al., 2017, Krieser et al., 2007)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\JMJD6 in JBrowse

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

View exonic expression by developmental stage for Dmel\JMJD6

View exonic expression by tissue for Dmel\JMJD6

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

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

42616/tissue=All

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

FBgn0038948

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0038948

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

FBgn0038948

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

CG5383

Flygut - An atlas of the Drosophila adult midgut

FBgn0038948

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 3 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of JMJD6

Transgenic constructs containing regulatory region of JMJD6

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)Exel6190

(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

JMJD6^FM1

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

JMJD6^GD11631

viable, with Scer\GAL4^Mef2.PR

JMJD6^GD11631

viable, with Scer\GAL4^pnr-MD237

JMJD6^GD11631

viable, with Scer\GAL4^tin.CΔ4

JMJD6^GD11631

Sterility

Allele

fertile

JMJD6^FM1

Other Phenotypes

Allele

enhancer of variegation, with In(1)w^m4

JMJD6^FM1

visible, with Scer\GAL4^ap-md544

JMJD6^UAS.cKa

visible, with Scer\GAL4^pnr-MD237

JMJD6^GD11631

visible | male, with Scer\GAL4^Act5C.PU

JMJD6^UAS.cKa

visible | male, with Scer\GAL4^Tub.PU

JMJD6^UAS.cKa

Phenotype manifest in

Allele

eye disc, with Scer\GAL4^GMR.PF

JMJD6^UAS.cKa

male genitalia, with Scer\GAL4^Act5C.PU

JMJD6^UAS.cKa

male genitalia, with Scer\GAL4^Tub.PU

JMJD6^UAS.cKa

ommatidium

JMJD6^FM1

trichogen cell, with Scer\GAL4^pnr-MD237

JMJD6^GD11631

wing, with Scer\GAL4^ap-md544

JMJD6^UAS.cKa

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) (11)

Hsap\JMJD6

14 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

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (10)

Rnor\Jmjd6

14 of 14

Yes

2 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) (10)

Mmus\Jmjd6

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (10)

Xtro\jmjd6

7 of 13

Yes

Xtro\asb8

5 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

Danio rerio (Zebrafish) (15)

Drer\jmjd6

13 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 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

Caenorhabditis elegans (Nematode, roundworm) (6)

Cele\psr-1

13 of 14

Yes

Cele\jmjd-4

2 of 14

Cele\C27F2.9

1 of 14

Yes

Cele\jhdm-1

1 of 14

Cele\jmjd-1.2

1 of 14

Cele\jmjd-5

1 of 14

Anopheles gambiae (African malaria mosquito) (7)

Agam\AgaP_AGAP000158

12 of 12

Yes

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (6)

Atha\AT1G78280

8 of 13

Yes

Atha\AT5G06550

8 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\jmj1

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:JMJD6. 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) (8)

4 of 13

3 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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?

JMJD6; jumonji domain containing 6, arginine demethylase and lysine hydroxylase

14 of 14

604914

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

JMJD6 - Atg4a

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - CG10347

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - CG3793

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - CG8560

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Cyp6a13

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Cyp6d4

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Dlc90F

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Fer1HCH

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Flad1

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Gnpda

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Hmgs

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Hsp26

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Hsp60A

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Lst8

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - MRG15

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - ND-75

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Ote

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - PheRS-m

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - SPE

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Tango2

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Tap42

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - Vostok

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - bocks

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - exu

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - hiro

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - igl

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - mts

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - nwk

experimental knowledge based

(Guruharsha et al., 2011)

JMJD6 - vrs

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

JMJD6

suppressible

puc

(Krieser et al., 2007)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

grim

enhanceable

JMJD6

(Krieser et al., 2007)

grim

suppressible

JMJD6

(Krieser et al., 2007)

hid

suppressible

JMJD6

(Krieser et al., 2007)

hid

enhanceable

JMJD6

(Krieser et al., 2007)

rpr

enhanceable

JMJD6

(Krieser et al., 2007)

Snr1

enhanceable

JMJD6

(Curtis et al., 2011)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

67574

DroID - A comprehensive database of gene and protein interactions.

FBgn0038948

MIST (genetic) - An integrated Molecular Interaction Database

42616

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

42616

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.

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

3-74

Cytogenetic map

94A6-94A6

Sequence location

3R:22,360,782..22,362,371 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

94A6-94A6

Limits computationally determined from genome sequence between P{lacW}l(3)L3560^L3560 and P{PZ}l(3)rQ178^rQ178

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-74

(FlyBase, 2016)

3-77.0

(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

16798

y¹ w^67c23; P{EPgy2}JMJD6^EY07193

33700

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00576}attP2

605591

y¹ w^*; PBac{5HPw⁺}Ote^B279/CyO, y⁺; JMJD6^FM1/TM6B, Tb¹

5383R-1

5383R-2

v22689

w¹¹¹⁸; P{GD11631}v22689

v22108

w¹¹¹⁸; P{GD11631}v22108/TM3

Genomic Clones (16)

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

cDNA Clones (53)

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

LD25827

Other clones

DPiM_LD25827

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.

FBgn0038948

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0038948

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

PSR is needed in wild-type cells for the death of Minute neighbours in cell competition experiments.

(Li and Baker, 2007)

Identification: in a screen for genes required for the phagocytosis of apoptotic cells in the Drosophila embryo using a panel of Drosophila strains carrying genomic deletions. Several candidate deletions were identified that displayed potential defects in this process. One of these was a large deletion that included the Drosophila homolog of the phosphatidylserine receptor (dPSR).

(Krieser et al., 2004)

May function to protect from death in Drosophila.

(Krieser et al., 2004)

Relationship to Other Genes

Source for database merge of

Source for merge of: PSR BEST:LD22859

(Rana, 2004.7.8)

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: PSR CG5383

(Krieser, 2004.3.4)

Source for identity of: JMJD6 PSR

(FlyBase, 2009-)

Nomenclature comments

'CG5383' was originally named 'PSR/phosphatidylserine receptor' based on the nomenclature used for the human homolog at the time (FBrf0178806). That nomenclature has since been shown to be inaccurate/misleading (https://www.uniprot.org/uniprot/Q6NYC1) and so the FlyBase gene symbol/name has been updated to reflect the current human gene nomenclature of 'JMJD6/jumonji domain containing 6'.

(FlyBase, 2009-)

Etymology

Synonyms and Secondary IDs (13)

Reported As

Symbol Synonym

BEST:LD22859

CG538

(Hossain et al., 2023)

CG5383

(Shalaby et al., 2017, Holowatyj et al., 2015, Hosono et al., 2015, Curtis et al., 2011, Ni et al., 2010.12.1, Krieser et al., 2007, Klose et al., 2006, Rana, 2004.7.8)

JMJD6

(Chvilicek et al., 2024)

L0022859

(Fadok et al., 2000)

(Bangs et al., 2000)

PSR

(Hossain et al., 2023, Gulati et al., 2020, Shimaji et al., 2019, Shalaby et al., 2018, Pinzón et al., 2017, Shalaby et al., 2017, Holowatyj et al., 2015, Levayer and Moreno, 2013, Japanese National Institute of Genetics, 2012.5.21, Cernilogar et al., 2011, Curtis et al., 2011, Jungreis et al., 2011)

Psr

(Hossain et al., 2023, Andersen et al., 2010)

dPSR

(Krieser et al., 2007, Krieser et al., 2007, Krieser et al., 2005, Krieser et al., 2004)

psr

(Li and Baker, 2007, Li and Baker, 2007)

Name Synonyms

Jumonji domain containing 6

phosphatidyl-serine receptor

(Li and Baker, 2007)

phosphatidylserine receptor

(Levayer and Moreno, 2013, Li and Baker, 2007, Krieser et al., 2004)

Secondary FlyBase IDs

FBgn0042088

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 39 )

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.

42616

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.

Q9VD28

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

Q9VD28

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

A0A0B4KHW1

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.

Q9VD28

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

42616/tissue=All

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

FBgn0038948

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

FBgn0038948

FlyMine - An integrated database for Drosophila genomics

FBgn0038948

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

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

dme:Dmel_CG5383

MARRVEL_MODEL - MARRVEL (model organism gene)

42616

Linkouts

BioGRID - A database of protein and genetic interactions.

67574

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

FBgn0038948

DroID - A comprehensive database of gene and protein interactions.

FBgn0038948

DRSC - Results frm RNAi screens

FBgn0038948

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

PSR_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0038948

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0038948

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

CG5383

Flygut - An atlas of the Drosophila adult midgut

FBgn0038948

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

TC014173

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

MIST (genetic) - An integrated Molecular Interaction Database

42616

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

42616

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

References (52)

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

2.26

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