FlyBase Gene Report: Dmel\CG5504

General Information

Symbol

Dmel\CG5504

Species

D. melanogaster

Name

Annotation Symbol

CG5504

Feature Type

protein_coding_gene

FlyBase ID

FBgn0002174

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Involved in hh/hedgehog signaling (PubMed:12783860). May act as a tumor suppressor in larval imaginal disks (PubMed:7758246). (UniProt, Q27237)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Pathway
Gene Group
UniProtKB
Interactive Fly

Also Known As

l(2)tid, lethal (2) tumorous imaginal discs, lethal(2)tumorous imaginal discs, lethal(2) tumorous imaginal discs, DnaJ

Key Links

Genomic Location

Cytogenetic map

59F6-59F6

Sequence location

2R:23,706,913..23,709,026 [+]

Recombination map

2-104

RefSeq locus

NT_033778 REGION:23706913..23709026

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 (10 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables patched binding

inferred from physical interaction with FLYBASE:ptc; FB:FBgn0003892

(Canamasas et al., 2003)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables ATP binding

inferred from electronic annotation with InterPro:IPR012724

(InterPro Project Members, 2004-)

enables heat shock protein binding

inferred from electronic annotation with InterPro:IPR001305

(InterPro Project Members, 2004-)

enables unfolded protein binding

inferred from electronic annotation with InterPro:IPR001305, InterPro:IPR008971, InterPro:IPR012724

(InterPro Project Members, 2004-)

Biological Process (4 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in negative regulation of smoothened signaling pathway

inferred from genetic interaction with FLYBASE:ptc; FB:FBgn0003892

(Canamasas et al., 2003)

inferred from physical interaction with FLYBASE:ptc; FB:FBgn0003892

(Canamasas et al., 2003)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

involved_in mitochondrion organization

inferred from biological aspect of ancestor with PANTHER:PTN001180543

(GO Reference Genome Project, 2011-)

involved_in protein folding

inferred from electronic annotation with InterPro:IPR008971, InterPro:IPR012724

(InterPro Project Members, 2004-)

involved_in response to heat

inferred from electronic annotation with InterPro:IPR012724

(InterPro Project Members, 2004-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cytosol

inferred from direct assay

(Canamasas et al., 2003)

located_in mitochondrion

inferred from direct assay

(Canamasas et al., 2003, Kurzik-Dumke et al., 1998)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

is_active_in mitochondrion

inferred from biological aspect of ancestor with PANTHER:PTN001180543

(GO Reference Genome Project, 2011-)

located_in mitochondrion

inferred from sequence or structural similarity

(Kurzik-Dumke et al., 1998)

Gene Group (FlyBase)

HEAT SHOCK PROTEIN 40/DNAJ CO-CHAPERONES

Pathway (FlyBase)

NEGATIVE REGULATORS OF HEDGEHOG SIGNALING PATHWAY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

HEAT SHOCK PROTEIN 40/DNAJ CO-CHAPERONES -: The Heat Shock Protein 40 (Hsp40) family of co-chaperones are essential factors in the Hsp70 chaperone cycle. The Hsp40 family is diverse in size and structure, but a number of them are about 40kDa and have been identified as products of heat shock genes. Their defining feature is the DnaJ or J-domain corresponding to the N-terminal 70 amino acids of the Escherichia coli co-chaperone DnaJ. (Adapted from FBrf0173155).

Pathway (FlyBase)

NEGATIVE REGULATORS OF HEDGEHOG SIGNALING PATHWAY -: Negative regulators of hedgehog signaling down-regulate the pathway, resulting in the repression of transcription of hh-responsive genes.

Protein Function (UniProtKB)

Involved in hh/hedgehog signaling (PubMed:12783860). May act as a tumor suppressor in larval imaginal disks (PubMed:7758246).

(UniProt, Q27237)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG5504 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 Q27237)

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 5.52

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

Alternative translation stop created by use of multiphasic reading frames within coding region.

Gene model reviewed during 5.55

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG5504-RA

FBtr0089503

NM_080193

1799

447

CG5504-RB

FBtr0089504

NM_206210

1804

520

CG5504-RC

FBtr0089505

NM_206209

1959

507

CG5504-RD

FBtr0306253

NM_001259554

1786

514

CG5504-RE

FBtr0344995

NM_001299848

1505

445

Additional Transcript Data and Comments

Reported size (kB)

2.0, 1.4, 0.82 (northern blot)

(Kurzik-Dumke et al., 1995)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

CG5504-PA

FBpp0088498

49.4

447

9.44

NP_524932

AAF47051

CG5504-PB

FBpp0088955

56.1

520

9.49

FBpp0088954

56.2

507

9.71

FBpp0297363

55.6

514

9.50

FBpp0311249

49.2

445

9.53

D3DN23

NP_001286777

AHN56572

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

518 (aa); 56 (kD predicted)

(Kurzik-Dumke et al., 1995)

Comments

External Data

Subunit Structure (UniProtKB)

Interacts with ptc (via C-terminal cytoplasmic region); the interaction is probably direct (PubMed:12783860). Interacts with hh/hedgehog; the interaction is probably mediated by the hedgehog receptor ptc (PubMed:12783860).

(UniProt, Q27237)

Post Translational Modification

Appears to produce proteins of differing size (Probable). Predicted to have a molecular mass of 56 kDa (TID56) however proteins of 50 kDa, 47 kDa and 40 kDa have been identified and named TID50, TID47 and TID40 (PubMed:12783860). TID50 and TID40 localize to the mitochondria while TID47 localizes to the cytoplasm (PubMed:12783860). TID50 is probably TID56 that has undergone mitochondrial transit peptide processing (Probable). TID40 and TID47 may be alternately processed proteins or may be isoforms resulting from alternative splicing (Probable).

(UniProt, Q27237)

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\CG5504 using the Feature Mapper tool.

External Data

Crossreferences

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

l(2)tid_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).

5.03

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 | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

anterior midgut primordium

(Fisher et al., 2012)

organism | faint | ubiquitous

(Fisher et al., 2012)

posterior midgut primordium

(Fisher et al., 2012)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(Kurzik-Dumke et al., 1997, Kurzik-Dumke et al., 1995)

larval stage

(Kurzik-Dumke et al., 1997, Kurzik-Dumke et al., 1995)

adult stage

(Kurzik-Dumke et al., 1997, Kurzik-Dumke et al., 1995)

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

located_in cytosol

inferred from direct assay

(Canamasas et al., 2003)

located_in mitochondrion

inferred from direct assay

(Canamasas et al., 2003, Kurzik-Dumke et al., 1998)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\CG5504 in JBrowse

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

View exonic expression by developmental stage for Dmel\CG5504

View exonic expression by tissue for Dmel\CG5504

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

FBgn0002174

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

48844/tissue=All

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

FBgn0002174

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0002174

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

FBgn0002174

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

CG5504

Flygut - An atlas of the Drosophila adult midgut

FBgn0002174

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\CG5504

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 2 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG5504

Transgenic constructs containing regulatory region of CG5504

Aberrations (Deficiencies and Duplications) ( 6 )

Inferred from experimentation ( 6 )

Gene disrupted in

Df(2R)OV1

(Kurzik-Dumke et al., 1995, Gundacker et al., 1993)

Df(2R)tid

(Kurzik-Dumke et al., 1995, Gundacker et al., 1993)

Df(2R)x32

(Kurzik-Dumke et al., 1995, Gundacker et al., 1993)

Gene not disrupted in

Df(2R)106

(Gundacker et al., 1993)

Df(2R)b23

(Gundacker et al., 1993)

Gene duplicated in

Dp(2;2)KD

(Kurzik-Dumke et al., 1997)

Inferred from location ( 6 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Other Phenotypes

Allele

wild-type

CG5504^+t7.0

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) (34)

Hsap\DNAJA3

14 of 14

Yes

2 of 14

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

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) (31)

Rnor\Dnaja3

14 of 14

Yes

2 of 14

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

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (30)

Mmus\Dnaja3

13 of 14

Yes

2 of 14

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

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (17)

Xtro\dnaja3

11 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

Danio rerio (Zebrafish) (39)

Drer\dnaja3a

14 of 14

Yes

Drer\dnaja3b

12 of 14

Yes

Drer\LOC554962

10 of 14

Yes

2 of 14

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

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) (21)

Cele\dnj-10

12 of 14

Yes

3 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 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

1 of 14

Anopheles gambiae (African malaria mosquito) (26)

Agam\AgaP_AGAP007565

11 of 12

Yes

Agam\AgaP_AGAP005908

5 of 12

Yes

2 of 12

2 of 12

2 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) (77)

Atha\GFA2

12 of 13

Yes

Atha\AT1G80030

7 of 13

Yes

Atha\AT2G22360

7 of 13

Yes

Atha\AT4G39960

7 of 13

Yes

Atha\ATJ1

7 of 13

Yes

Atha\AT3G17830

4 of 13

Yes

Atha\AT1G77930

2 of 13

Yes

Atha\AT4G37480

2 of 13

Yes

Atha\AT5G18140

2 of 13

Yes

Atha\NdhT

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

Yes

Atha\AT2G05230

1 of 13

Yes

Atha\AT2G05250

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT2G33735

1 of 13

Atha\AT2G35540

1 of 13

Yes

Atha\AT2G41000

1 of 13

Atha\AT2G42750

1 of 13

Yes

Atha\AT3G04980

1 of 13

Yes

Atha\AT3G05345

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

Yes

Atha\AT4G19580

1 of 13

Yes

Atha\AT4G19590

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT5G23590

1 of 13

Atha\AT5G25530

1 of 13

Atha\AT5G27240

1 of 13

Yes

Atha\AT5G37380

1 of 13

Atha\AT5G37750

1 of 13

Yes

Atha\AT5G49060

1 of 13

Atha\AT5G53150

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

Saccharomyces cerevisiae (Brewer's yeast) (14)

Scer\MDJ1

11 of 13

Yes

Scer\JEM1

2 of 13

Scer\XDJ1

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

Schizosaccharomyces pombe (Fission yeast) (14)

Spom\mdj1

11 of 12

Yes

Spom\SPBC405.06

2 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

Escherichia coli (enterobacterium) (2)

Ecol\dnaJ

8 of 11

Yes

Ecol\cbpA

1 of 11

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:CG5504. 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) (29)

9 of 13

2 of 13

2 of 13

2 of 13

2 of 13

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

Csp

1 of 13

DnaJ-1

1 of 13

Dph4

1 of 13

jdp

1 of 13

mrj

1 of 13

P58IPK

1 of 13

shv

1 of 13

Tpr2

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?

DNAJA3; DnaJ heat shock protein family (Hsp40) member A3

14 of 14

608382

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

CG5504 - Akt

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

CG5504 - Nrd1

anti tag coimmunoprecipitation, Identification by mass spectrometry, anti tag western blot

(Yoon et al., 2017)

CG5504 - Pdk1

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

CG5504 - S6k

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

CG5504 - hh

anti bait coimmunoprecipitation, western blot

(Canamasas et al., 2003)

CG5504 - ptc

two hybrid, anti bait coimmunoprecipitation, western blot, pull down, anti tag western blot

(Canamasas et al., 2003)

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

Subunit Structure (UniProtKB)

(UniProt, Q27237 )

Linkouts

BioGRID - A database of protein and genetic interactions.

71741

DroID - A comprehensive database of gene and protein interactions.

FBgn0002174

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

48844

Pathways

Signaling Pathways (FlyBase)

NEGATIVE REGULATORS OF HEDGEHOG SIGNALING PATHWAY

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-104

Cytogenetic map

59F6-59F6

Sequence location

2R:23,706,913..23,709,026 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

59F6-59F6

Limits computationally determined from genome sequence between P{PZ}apt⁰³⁰⁴¹ and P{EP}egl^EP938

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

59F5-59F5

(Kurzik-Dumke, 1994.2.22)

59F-59F

(determined by in situ hybridisation)

(Kurzik-Dumke et al., 1995)

Experimentally Determined Recombination Data

Location

2-104

(FlyBase, 2016)

2-108.8

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

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

Bloomington

28594

y¹ v¹; P{TRiP.HM05082}attP2

82652

y¹ sc^* v¹ sev²¹; P{TKO.GS04116}attP40

78913

y¹ w^*; TI{CRIMIC.TG4.1}Alg3^{CR00440-TG4.1} CG5504^{CR00440-TG4.1-X}/SM6a

NIG-Fly

2RG-0377

y² VhaAC39-1^cho-1 v¹; P{U6-CG5504.NIG.sgRNA}attP40/CyO

Genomic Clones (18)

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

cDNA Clones (6)

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

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.

FBgn0002174

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

GM24216

Other clones

bs33a12

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0002174

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

In some strains the Alg3, l(2)rot and CG5504 genes are duplicated in tandem (Dp(2;2)KD). This 5327-bp duplication has been found in the Harvich and "a px o" strains, but not in Oregon-R or a "b If" strain.

(Kurzik-Dumke et al., 1997)

l(2)rot RNA may have a role as a natural temporal and/or tissue-specific regulator of CG5504 expression.

(Kurzik-Dumke et al., 1997)

CG5504, Alg3 and l(2)rot are nested genes with complex genetic and molecular interactions. Alg3 and l(2)rot may act upstream of CG5504, and be involved in its transcriptional regulation.

(Kurzik-Dumke et al., 1995)

Relationship to Other Genes

Source for database merge of

Source for merge of: l(2)tid CG5504

(Bayraktaroglu, 2000.4.7)

Additional comments

The mutant phenotype of the "tumorous imaginal discs" (tid) gene was originally described in Kurzik-Dumke et al. 1992 (FBrf0055923), and was subsequently reported to encode a DnaJ-like molecular chap- erone in Kurzik-Dumke et al. 1995 (FBrf0080183). However, the "tid" gene was cloned incorrectly - aberrant cell proliferation in tid mutants arises not from disruptions to the DnaJ homolog (CG5504) but rather to an adjacent gene that encodes the mannosyltransferase Alg3 (CG4084, also called "neighbor of tid", "l(2)not"). To avoid confusion with the previous annotation, the CG4084 gene is referred to as "alg3". FlyBase curator comment: Also to avoid confusion, the "l(2)tid" gene has been renamed back to its CG identifier (CG5504).

(de Vreede et al., 2018)

Nomenclature History

Source for database identify of

Source for identity of: CG5504 l(2)tid

(de Vreede et al., 2018)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (10)

Reported As

Symbol Synonym

CG5504

(National Institute of Genetics Fly Stocks, 2022-, Perlegos et al., 2022, de Vreede et al., 2018, Perkins et al., 2009)

DnaJ

(Walser et al., 2006, Kurzik-Dumke et al., 1995)

TID56

(Iliopoulos et al., 1997)

cDNA 10D

(Kurzik-Dumke et al., 1995)

l(2)701

l(2)tid

(Park et al., 2021, Olson et al., 2019, Zirin et al., 2019, Gene Disruption Project members, 2018-, Transgenic RNAi Project members, 2017-, Yoon et al., 2017, Aradska et al., 2015, Liu and Secombe, 2015, Kwon et al., 2013, Friedman et al., 2011, Krejcí et al., 2009, Kurzik-Dumke et al., 1995, Kurzik-Dumke et al., 1995, Kurzik-Dumke et al., 1993, Kurzik-Dumke et al., 1993)

l(2)tud

lethal (2) tumorous imaginal discs

(Edwards et al., 2006)

Name Synonyms

lethal (2) tumorous imaginal discs

(Edwards et al., 2006)

lethal(2) tumorous imaginal discs

(Kurzik-Dumke et al., 1993, Kurzik-Dumke et al., 1993)

lethal(2)tumorous imaginal discs

(Kurzik-Dumke et al., 1995, Kurzik-Dumke et al., 1995)

Secondary FlyBase IDs

FBgn0034896

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 73 )

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.

48844

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.

Q27237

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

Q27237

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.

Q27237

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0002174

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

48844/tissue=All

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

FBgn0002174

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

FBgn0002174

FlyMine - An integrated database for Drosophila genomics

FBgn0002174

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

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

dme:Dmel_CG5504

MARRVEL_MODEL - MARRVEL (model organism gene)

48844

Linkouts

BioGRID - A database of protein and genetic interactions.

71741

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

FBgn0002174

DroID - A comprehensive database of gene and protein interactions.

FBgn0002174

DRSC - Results frm RNAi screens

FBgn0002174

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

l(2)tid_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0002174

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0002174

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

CG5504

Flygut - An atlas of the Drosophila adult midgut

FBgn0002174

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

TC008059

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

48844

References (69)

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

5.03

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