FlyBase Gene Report: Dmel\Pdh

General Information

Symbol

Dmel\Pdh

Species

D. melanogaster

Name

Photoreceptor dehydrogenase

Annotation Symbol

CG4899

Feature Type

protein_coding_gene

FlyBase ID

FBgn0011693

Gene Model Status

Current

Stock Availability

12 publicly available

Enzyme Name (EC)

all-trans-retinol dehydrogenase (NAD(+)) (1.1.1.105)

Gene Summary

Photoreceptor dehydrogenase (Pdh) encodes a retinal pigment cell dehydrogenase involved in retinol metabolism. [Date last reviewed: 2019-09-12] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

pcdr, pigment cell dehydrogenase reductase

Key Links

Genomic Location

Cytogenetic map

72E2-72E2

Sequence location

3L:16,353,233..16,354,297 [-]

Recombination map

3-44

RefSeq locus

NT_037436 REGION:16353233..16354297

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 (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables all-trans-retinol dehydrogenase (NAD+) activity

inferred from direct assay

(Hofmann et al., 2016)

inferred from mutant phenotype

(Wang et al., 2010)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

inferred from biological aspect of ancestor with PANTHER:PTN002449290

(GO Reference Genome Project, 2011-)

Biological Process (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in retinal metabolic process

inferred from mutant phenotype

(Wang et al., 2010)

involved_in retinol metabolic process

inferred from mutant phenotype

(Wang et al., 2010)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN002449290

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

ALL-TRANS-RETINOL DEHYDROGENASES (NAD-DEPENDENT)

Protein Family (UniProt)

Protein Signatures (InterPro)

Catalytic Activity (EC/Rhea)

all-trans-retinol dehydrogenase (NAD+) activity

all-trans-retinol--[retinol-binding protein] + NAD(+) = all-trans- retinal--[retinol-binding protein] + NADH + H(+) (1.1.1.105)

RHEA 48488: oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

Summaries

Gene Snapshot

Photoreceptor dehydrogenase (Pdh) encodes a retinal pigment cell dehydrogenase involved in retinol metabolism. [Date last reviewed: 2019-09-12]

Gene Group (FlyBase)

ALL-TRANS-RETINOL DEHYDROGENASES (NAD-DEPENDENT) -: NAD-dependent all-trans-retinol dehydrogenases are short chain dehydrogenase/reductase (SDR) family members involved in the visual cycle. They mediate the oxidation of all-trans-retinol to all-trans-retinal, exhibiting a strong preference for NAD as the acceptor. (Adapted from FBrf0209889 and PMID:20801113).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Pdh 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 Q9VV42)

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

PDB - An information portal to biological macromolecular structures

5ILG
5ILO

Comments on Gene Model

Gene model reviewed during 5.44

Gene model reviewed during 5.45

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Pdh-RA

FBtr0075426

NM_079381

945

278

Pdh-RB

FBtr0075427

NM_168659

942

277

Pdh-RC

FBtr0114536

NM_001144487

920

261

Pdh-RD

FBtr0114537

NM_001144488

913

260

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

Pdh-PA

FBpp0075184

30.2

278

9.60

FBpp0075185

30.0

277

9.45

FBpp0113028

28.3

261

9.03

FBpp0113029

28.2

260

8.74

B7Z061

NP_001137960

ACL83315

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

PDB - An information portal to biological macromolecular structures

5ILG
5ILO

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\Pdh using the Feature Mapper tool.

External Data

Crossreferences

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

Pdh_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).

-0.58

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

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\Pdh in JBrowse

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

View exonic expression by developmental stage for Dmel\Pdh

View exonic expression by tissue for Dmel\Pdh

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

FBgn0011693

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

39812/tissue=All

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

FBgn0011693

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011693

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

FBgn0011693

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

CG4899

Flygut - An atlas of the Drosophila adult midgut

FBgn0011693

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 4 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 11 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Pdh

Transgenic constructs containing regulatory region of Pdh

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

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

lethal, with Scer\GAL4^Mef2.PR

Pdh^KK108724

lethal - all die before end of pupal stage, with Scer\GAL4^pnr-MD237

Pdh^GD1665

partially lethal, with Scer\GAL4^tin.CΔ4

Pdh^GD16751

viable

Pdh^PL00234

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

viable, with Scer\GAL4^Mef2.PR

Pdh^GD16751

viable, with Scer\GAL4^pnr-MD237

Pdh^GD16751

viable, with Scer\GAL4^tin.CΔ4

Pdh^GD1665

Sterility

Allele

fertile

Pdh^PL00234

Other Phenotypes

Allele

abnormal neurophysiology

Pdh¹

abnormal neurophysiology | recessive

Pdh¹

short lived | heat sensitive, with Scer\GAL4^tin.CΔ4

Pdh^GD1665

some die during pupal stage, with Scer\GAL4^pnr-MD237

Pdh^GD1665

Phenotype manifest in

Allele

abdominal lateral pentascolopidial chordotonal organ lch5 | third instar larval stage

Pdh¹

Johnston organ | third instar larval stage

Pdh¹

rhabdomere

Pdh¹

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) (26)

Hsap\HPGD

10 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

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) (17)

Rnor\Hpgd

10 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

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Rnor\Sdr16c5

1 of 14

Rnor\Sdr16c6

1 of 14

Rnor\Zadh2

1 of 14

Mus musculus (laboratory mouse) (14)

Mmus\Hpgd

10 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

Xenopus tropicalis (Western clawed frog) (26)

Xtro\hpgd

2 of 13

Yes

Xtro\hsd17b14

2 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

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\synj2bp

1 of 13

Xtro\XB5863530

1 of 13

Xtro\zadh2

1 of 13

Danio rerio (Zebrafish) (32)

Drer\zgc:56585

12 of 14

Yes

Drer\hpgd

11 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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Drer\si:ch211-107o10.3

1 of 14

Drer\si:dkey-12e7.4

1 of 14

Drer\si:dkey-23o4.6

1 of 14

Drer\si:dkey-174n20.1

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) (47)

Cele\C06E4.3

2 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

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

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

Anopheles gambiae (African malaria mosquito) (34)

Agam\AgaP_AGAP006926

11 of 12

Yes

Agam\AgaP_AGAP001753

3 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (56)

Atha\NQR

5 of 13

Yes

2 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

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

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

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) (6)

Scer\AYR1

1 of 13

Yes

Scer\FOX2

1 of 13

Yes

Scer\IRC24

1 of 13

Yes

Scer\OSI1

1 of 13

Yes

Scer\YDL114W

1 of 13

Yes

Scer\YMR226C

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (8)

Spom\SPAC521.03

1 of 12

Yes

Spom\SPAC922.06

1 of 12

Yes

Spom\SPBC30D10.05c

1 of 12

Yes

Spom\SPCC24B10.20

1 of 12

Yes

Spom\SPCC162.03

1 of 12

Yes

Spom\SPCC663.06c

1 of 12

Yes

Spom\SPCC663.08c

1 of 12

Yes

Spom\SPCC663.09c

1 of 12

Yes

Escherichia coli (enterobacterium) (6)

Ecol\fabG

1 of 11

Yes

Ecol\kduD

1 of 11

Yes

Ecol\ucpA

1 of 11

Yes

Ecol\ydfG

1 of 11

Yes

Ecol\ygcW

1 of 11

Yes

Ecol\yohF

1 of 11

Yes

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Pdh. 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) (34)

12 of 13

12 of 13

11 of 13

8 of 13

Adh

7 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

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

scu

1 of 13

sni

1 of 13

spidey

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 ( 1 )

Human Ortholog

Disease

Evidence

References

HPGD; 15-hydroxyprostaglandin dehydrogenase

model of primary hypertrophic osteoarthropathy

IEA

(FlyBase, 2019-)

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?

HPGD; 15-hydroxyprostaglandin dehydrogenase

10 of 14

601688

primary hypertrophic osteoarthropathy

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.

Dmel gene

Ortholog showing functional complementation

Supporting References

Pdh

Hsap\RDH12

(Wang et al., 2010)

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

Pdh

x-ray crystallography

(Hofmann et al., 2016)

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

BioGRID - A database of protein and genetic interactions.

65119

DroID - A comprehensive database of gene and protein interactions.

FBgn0011693

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

39812

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel

retinoate biosynthesis I

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

External Data

Linkouts

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

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-44

Cytogenetic map

72E2-72E2

Sequence location

3L:16,353,233..16,354,297 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

72E2-72E2

Limits computationally determined from genome sequence between P{lacW}l(3)s3123^s3123 and P{lacW}l(3)j10E8^j10E8&P{PZ}l(3)10532¹⁰⁵³²

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

72E-72E

(determined by in situ hybridisation)

(Brunel et al., 1998)

Experimentally Determined Recombination Data

Location

3-44

(FlyBase, 2016)

3-38.6

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (12)

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

Bloomington

29292

w¹¹¹⁸; Mi{ET1}Pdh^MB12341

85605

w¹¹¹⁸; PBac{WH}Pdh^f00328

32077

w^*; P{Pdh^+t1.5}2; TI{TI}Pdh¹ st¹

77093

y¹ sc^* v¹ sev²¹; P{TKO.GS00886}attP40

79667

y¹ sc^* v¹ sev²¹; P{TOE.GS01236}attP40

64497

y¹ sc^* v¹ sev²¹; P{TRiP.HMC05515}attP40

58765

w^*; P{UAS-Pdh.myc}2, bw¹/CyO; TI{TI}Pdh¹ st¹/MKRS, Sb¹

19425

w^*; PBac{GAL4D,EYFP}Pdh^PL00234 Tcs3^PL00234 P{FRT(w^hs)}2A P{neoFRT}82B

FlyORF

F002785

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

4899R-1

v104428

v6470

w¹¹¹⁸; P{GD1665}v6470/TM3

Genomic Clones (11)

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

cDNA Clones (216)

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_RH58615

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.

FBgn0011693

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0011693

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Wang et al., 2010)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

(Stroschein-Stevenson et al., 2006)

Shows particularly robust cycling of transcription in adult heads, as assessed by expression analysis using high density oligonucleotide arrays with probe generated during three 12-point time course experiments over the course of 6 days. Shows significant change of expression pattern in circadian mutant background; increased expression in per⁰¹, tim⁰¹ and Clk^Jrk background.

(Claridge-Chang et al., 2001)

Relationship to Other Genes

Source for database merge of

Source for merge of: Pdh pcdr

(Ashburner, 1998.9.30)

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

CG4899

(Rosa-Ferreira et al., 2015, Keleman et al., 2009.8.5, Perkins et al., 2009)

PDH

(Mahanta et al., 2025, Basu et al., 2024, Goyal et al., 2022, Lam Wong and Verheyen, 2021, Bjedov et al., 2020, Hofmann et al., 2016, Arshavsky, 2010)

pcdr

(Brunel, 1998.10.14, Brunel et al., 1998)

pdh

(Pandey et al., 2013, Wang et al., 2010, Yang et al., 2005)

Name Synonyms

Photoreceptor dehydrogenase

(Xun et al., 2009)

photoreceptor retinol dehydrogenase

(Hofmann et al., 2016)

pigment cell dehydrogenase reductase

(Icreverzi et al., 2015, Brunel et al., 1998)

pigment-cell-enriched dehydrogenase

(Arshavsky, 2010)

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 59 )

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.

39812

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.

Q9VV42

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.

Q9VV42

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0011693

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

39812/tissue=All

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

FBgn0011693

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

FBgn0011693

FlyMine - An integrated database for Drosophila genomics

FBgn0011693

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

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

dme:Dmel_CG4899

MARRVEL_MODEL - MARRVEL (model organism gene)

39812

PDB - An information portal to biological macromolecular structures

5ILG
5ILO

Linkouts

BioGRID - A database of protein and genetic interactions.

65119

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

FBgn0011693

DroID - A comprehensive database of gene and protein interactions.

FBgn0011693

DRSC - Results frm RNAi screens

FBgn0011693

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

Pdh_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011693

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0011693

FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel

retinoate biosynthesis I

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

CG4899

Flygut - An atlas of the Drosophila adult midgut

FBgn0011693

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

39812

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

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

References (80)

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

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