FlyBase Gene Report: Dmel\Hr4

General Information

Symbol

Dmel\Hr4

Species

D. melanogaster

Name

Hormone receptor 4

Annotation Symbol

CG43934

Feature Type

protein_coding_gene

FlyBase ID

FBgn0264562

Gene Model Status

Current

Stock Availability

33 publicly available

Gene Summary

Hormone receptor 4 (Hr4) encodes a nuclear receptor that acts both upstream and downstream of the steroid hormone ecdysone. In the prothoracic gland the product of Hr4 acts as a repressor of ecdysone production. In other tissues, including the salivary gland and the fat body, Hr4 is transcriptionally induced by ecdysone to transduce the effects of the hormone. [Date last reviewed: 2019-03-07] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

DHR4, EG:133E12.2 , EG:BACH61I5.1 , EP1232, NR6A2

Key Links

Genomic Location

Cytogenetic map

2B16-2C1

Sequence location

X:1,941,940..2,007,956 [+]

Recombination map

1-0.5

RefSeq locus

NC_004354 REGION:1941940..2007956

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 (15 terms)

Molecular Function (5 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables nuclear receptor activity

inferred from mutant phenotype

(King-Jones et al., 2005)

Terms Based on Predictions or Assertions (5 terms)

CV Term

Evidence

References

enables DNA-binding transcription factor activity

inferred from electronic annotation with InterPro:IPR001628

(InterPro Project Members, 2004-)

enables estrogen response element binding

inferred from biological aspect of ancestor with PANTHER:PTN001182563

(GO Reference Genome Project, 2011-)

enables nuclear receptor activity

non-traceable author statement

(Maglich et al., 2001)

inferred from biological aspect of ancestor with PANTHER:PTN002377694

(GO Reference Genome Project, 2011-)

enables sequence-specific DNA binding

inferred from electronic annotation with InterPro:IPR001628

(InterPro Project Members, 2004-)

enables zinc ion binding

inferred from electronic annotation with InterPro:IPR001628, InterPro:IPR013088

(InterPro Project Members, 2004-)

Biological Process (7 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

involved_in cellular response to hypoxia

inferred from mutant phenotype

(Lee et al., 2008)

acts_upstream_of negative regulation of ecdysone receptor signaling pathway

inferred from mutant phenotype

(King-Jones et al., 2005)

involved_in positive regulation of multicellular organism growth

inferred from mutant phenotype

(King-Jones et al., 2005)

involved_in regulation of developmental growth

inferred from mutant phenotype

(Ou et al., 2011)

involved_in regulation of pupariation

inferred from mutant phenotype

(King-Jones et al., 2005)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in regulation of DNA-templated transcription

inferred from electronic annotation with InterPro:IPR001628, InterPro:IPR013088

(InterPro Project Members, 2004-)

involved_in regulation of transcription by RNA polymerase II

inferred from biological aspect of ancestor with PANTHER:PTN001182563

(GO Reference Genome Project, 2011-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cytoplasm

inferred from direct assay

(King-Jones et al., 2005)

located_in nucleus

inferred from direct assay

(King-Jones et al., 2005)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in chromatin

inferred from biological aspect of ancestor with PANTHER:PTN002377694

(GO Reference Genome Project, 2011-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN001182563

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

NUCLEAR RECEPTOR (LIGAND-DEPENDENT) TRANSCRIPTION FACTORS

Protein Family (UniProt)

Belongs to the nuclear hormone receptor family. NR1 subfamily. (Q9W539)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

NUCLEAR RECEPTOR (LIGAND-DEPENDENT) TRANSCRIPTION FACTORS -: Nuclear receptors (NR) are C4 zinc finger ligand-dependent DNA-binding transcription factors. Members of the NR superfamily are defined by the presence of a highly conserved DNA-binding domain and a less conserved C-terminal ligand-binding domain. (Adapted from FBrf0184203).

Protein Function (UniProtKB)

Coordinates growth and maturation by mediating endocrine responses to the attainment of critical weight during larval development. Plays a central role in the genetic cascades triggered by the steroid hormone ecdysone at the onset of metamorphosis, acting as both a repressor of the early ecdysone-induced regulatory genes and an inducer of the ftz-f1 midprepupal competence factor.

(UniProt, Q9W539)

Summary (Interactive Fly)

steroid hormone receptor - coordinates growth and maturation in Drosophila by mediating endocrine responses to achieve critical weight during larval development

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Hr4 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 Q9W539)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

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

Gene model reviewed during 5.46

Gene model reviewed during 5.43

Low-frequency RNA-Seq exon junction(s) not annotated.

Stop-codon suppression (UAG) postulated (FBrf0222776, FlyBase analysis); supported by conservation of the extended ORF across Drosophila species (FBrf0202906).

Gene model reviewed during 5.56

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Hr4-RC

FBtr0333341

NM_001038734

8403

1518

Hr4-RD

FBtr0333340

NM_001272230

8596

1529

Hr4-RE

FBtr0333339

NM_001272229

9374

1842

Hr4-RF

FBtr0333338

NM_001272228

8417

1611

Hr4-RG

FBtr0333337

NM_001272227

9386

1986

Hr4-RH

FBtr0333342

NM_001272231

8406

1863

Hr4-RI

FBtr0333343

NM_001272232

8338

2123

Hr4-RJ

FBtr0333344

NM_001272233

10003

1843

Hr4-RK

FBtr0333345

NM_001272234

12551

1843

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

Hr4-PC

FBpp0305533

162.7

1518

8.70

FBpp0305532

163.7

1529

8.70

FBpp0305531

197.5

1842

8.03

FBpp0305530

173.2

1611

9.67

FBpp0305529

213.5

1986

8.17

FBpp0305534

199.6

1863

8.66

FBpp0305535

226.1

2123

9.05

FBpp0305536

197.5

1843

8.03

FBpp0305537

197.5

1843

8.03

M9PGA3

NP_001259163

AGB95009

Polypeptides with Identical Sequences

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

1843 aa isoforms: Hr4-PJ, Hr4-PK

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Hr4 using the Feature Mapper tool.

External Data

Crossreferences

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

Hr4_1
Hr4_2

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).

-0.33

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

oogenesis stage S9 -- S10

centripetal follicle cell

(Manning et al., 2017)

border follicle cell

(Manning et al., 2017)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

ring gland

(Ou et al., 2011)

embryonic/larval fat body

(Ou et al., 2011)

prothoracic gland

(Ou et al., 2011)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytoplasm

inferred from direct assay

(King-Jones et al., 2005)

located_in nucleus

inferred from direct assay

(King-Jones et al., 2005)

Expression Deduced from Reporters

Reporter: PBac{Hr4-GFP.FSTF}

Stage

Tissue/Position (including subcellular localization)

Reference

oogenesis stage S9 -- S10

border follicle cell

(Manning et al., 2017)

centripetal follicle cell

(Manning et al., 2017)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Hr4 in JBrowse

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

View exonic expression by developmental stage for Dmel\Hr4

View exonic expression by tissue for Dmel\Hr4

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

FBgn0264562

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

31162/tissue=All

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

FBgn0264562

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

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

FBgn0264562

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

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 56 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 22 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Hr4

Transgenic constructs containing regulatory region of Hr4

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 19 )

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

Hr4^17C9

lethal | pharate adult stage, with Hr4¹

Hr4^Hsp70.PK

lethal | pharate adult stage, with Hr4^Hsp70.PK

Hr4¹

lethal | recessive

Hr4^PL78

lethal - all die before end of larval stage | heat sensitive

Hr4^Hsp70.PK

lethal - all die before end of prepupal stage

Hr4¹

lethal - all die before end of prepupal stage, with Scer\GAL4^Cg.PA

Hr4^RNAi.UAS.cOa

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

Hr4^GD11026

lethal - all die during P-stage, with Scer\GAL4^Mef2.PR

partially lethal - majority die, with Scer\GAL4^en-e16E

Hr4^EP1232

partially lethal - majority die, with Scer\GAL4^pnr-MD237

Hr4^GD1464

partially lethal - majority die | prepupal stage | heat sensitive

Hr4^RNAi.hs

partially lethal - majority die | pupal stage, with Hr4¹

Hr4^Hsp70.PK

partially lethal - majority die | pupal stage, with Hr4^Hsp70.PK

Hr4¹

partially lethal - majority die | pupal stage | heat sensitive

Hr4^RNAi.hs

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

Hr4^GD1464

viable, with Scer\GAL4^tin.CΔ4

Hr4^GD1464

Other Phenotypes

Allele

abnormal body color, with Scer\GAL4^pnr-MD237

Hr4^GD1464

abnormal developmental rate

Hr4¹

abnormal developmental rate | first instar larval stage, with Scer\GAL4^phtm.PO

Hr4^UAS.cQa

abnormal developmental rate | larval stage, with Scer\GAL4^P0206

Hr4^RNAi.UAS.cOa

abnormal developmental rate | prepupal stage

Hr4¹

abnormal developmental rate | second instar larval stage, with Scer\GAL4^Cg.PA

Hr4^UAS.cQa

abnormal developmental rate | second instar larval stage, with Scer\GAL4^P0206

Hr4^UAS.cQa

abnormal developmental rate | third instar larval stage

Hr4¹

decreased body size

Hr4¹

decreased body size | adult stage | heat sensitive

Hr4^RNAi.hs

decreased body size | prepupal stage, with Scer\GAL4^P0206

Hr4^RNAi.UAS.cOa

decreased body size | pupal stage | heat sensitive

Hr4^RNAi.hs

decreased body size | second instar larval stage | heat sensitive

Hr4^RNAi.hs

increased body size | first instar larval stage, with Scer\GAL4^P0206

Hr4^UAS.cQa

some die during prepupal stage | recessive

Hr4¹

some die during prepupal stage | recessive, with Scer\GAL4^Cg.PA

Hr4^RNAi.UAS.cOa

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

some die during third instar larval stage | heat sensitive

Hr4^Hsp70.PK

visible, with Scer\GAL4^Bx-MS1096

Hr4^RNAi.UAS.cUa

visible, with Scer\GAL4^en-e16E

Hr4^EP1232

visible, with Scer\GAL4^ey.PH

Hr4^EP1232

visible, with Scer\GAL4^GMR.PF

Hr4^EP1232

visible, with Scer\GAL4^hs.2sev

Hr4^EP1232

visible, with Scer\GAL4^pnr-MD237

Hr4^GD1464

visible, with Scer\GAL4^sca-537.4

Hr4^EP1232

wild-type, with Scer\GAL4^ap-md544

Hr4^EP1232

Phenotype manifest in

Allele

anterior pupal spiracle, with Scer\GAL4^Cg.PA

Hr4^RNAi.UAS.cOa

chaeta | increased number, with Scer\GAL4^pnr-MD237

Hr4^GD1464

dorsocentral bristle, with Scer\GAL4^sca-537.4

Hr4^EP1232

embryonic/larval fat body, with Scer\GAL4^P0206

Hr4^UAS.cQa

eye, with Scer\GAL4^ey.PH

Hr4^EP1232

eye, with Scer\GAL4^GMR.PF

Hr4^EP1232

eye, with Scer\GAL4^hs.2sev

Hr4^EP1232

mesonotum, with Scer\GAL4^pnr-MD237

Hr4^GD1464

ommatidium, with Scer\GAL4^hs.2sev

Hr4^EP1232

ring gland, with Scer\GAL4^P0206

Hr4^UAS.cQa

scutellar bristle, with Scer\GAL4^sca-537.4

Hr4^EP1232

tormogen cell, with Scer\GAL4^sca-537.4

Hr4^EP1232

wing, with Scer\GAL4^Bx-MS1096

Hr4^RNAi.UAS.cUa

wing, with Scer\GAL4^en-e16E

Hr4^EP1232

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) (43)

Hsap\NR6A1

8 of 14

Yes

2 of 14

2 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

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) (32)

Rnor\Nr6a1

6 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

Mus musculus (laboratory mouse) (33)

Mmus\Nr6a1

7 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

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) (30)

Xtro\nr6a1

5 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

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) (53)

Drer\nr6a1a

8 of 14

Yes

Drer\nr6a1b

7 of 14

Yes

2 of 14

2 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

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

Caenorhabditis elegans (Nematode, roundworm) (63)

Cele\nhr-91

5 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

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

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

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

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

Yes

Cele\unc-55

1 of 14

Anopheles gambiae (African malaria mosquito) (20)

Agam\AgaP_AGAP004693

9 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

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\KIN3

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Hr4. 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) (20)

ERR

2 of 13

ftz-f1

2 of 13

Hr39

2 of 13

CG8086

1 of 13

EcR

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Hr3

1 of 13

Hr38

1 of 13

Hr78

1 of 13

Hr96

1 of 13

kni

1 of 13

knrl

1 of 13

spen

1 of 13

svp

1 of 13

tll

1 of 13

usp

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?

NR6A1; nuclear receptor subfamily 6 group A member 1

8 of 14

602778

OCULOVERTEBRAL SYNDROME; OVS

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

Hr4

fluorescent resonance energy transfer, fluorescence microscopy, comigration in gel electrophoresis, anti tag western blot

(Nil et al., 2019)

RNA-RNA

Physical Interaction

Assay

References

Hr4 - mir-34

luminiscence technology, necessary binding region

(Lai et al., 2016)

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

suppressible

(Ou et al., 2011)

suppressible

(Ou et al., 2011)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

grim

suppressible

Hr4

(Müller et al., 2005)

suppressible

Hr4

(Müller et al., 2005)

hid

suppressible

Hr4

(Müller et al., 2005)

p53

suppressible

Hr4

(Müller et al., 2005)

pnr

enhanceable

Hr4

(Pena-Rangel et al., 2002)

suppressible

(Ou et al., 2011)

suppressible

(Müller et al., 2005)

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0264562

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

31162

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.

Nuclear Receptor transcription pathway

Class of Gene

gene_with_stop_codon_read_through

(FlyBase Genome Annotators, 2012)

nuclear_gene

(FlyBase Genome Annotators, 2008)

protein_coding_gene

(FlyBase Genome Annotators, 2008)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-0.5

Cytogenetic map

2B16-2C1

Sequence location

X:1,941,940..2,007,956 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

2B16-2C1

; Limits computationally determined from genome sequence between P{EP}CG3600^EP1232 and P{EP}EP427

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

2B16-2B18

(determined by in situ hybridisation)

(Abdelilah-Seyfried et al., 2000)

Experimentally Determined Recombination Data

Location

1-0.5

(FlyBase, 2016, Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (33)

Genomic Clones (28)

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

cDNA Clones (15)

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

IP12727

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.

FBgn0264562

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Mazina et al., 2015)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Hr4 oscillates between the nucleus and cytoplasm of cells in the prothoracic gland. Hr4 is absent from nuclei at developmental times when low titre ecdysone pulses occur.

(Ou et al., 2011)

Hr4 acts as a transcriptional repressor of Cyp6t3.

(Ou et al., 2011)

New annotation (CG42527) in release 5.14 of the genome annotation.

(FlyBase Genome Annotators, 2008)

RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R⁺ cells.

(Boutros et al., 2004)

Relationship to Other Genes

Source for database merge of

Source for merge of: Hr4 CG3600

(FlyBase Genome Annotators, 2012)

Source for merge of: CG3600 EP1232

(Müller et al., 2005)

Source for merge of: CG42527 Hr4

(FlyBase Genome Annotators, 2012)

Additional comments

Annotations CG16902 and CG3600 merged as CG43692 in release 5.43 of the genome annotation.

(FlyBase Genome Annotators, 2012)

Annotations CG42527 and CG43692 merged as CG43934 in release 5.46 of the genome annotation. Merge supported by RNA-seq junction data.

(FlyBase Genome Annotators, 2012)

Nomenclature History

Source for database identify of

Source for identity of: Hr4 EG:133E12.2

(King-Jones, 2001.3.12)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (17)

Reported As

Symbol Synonym

CG16902

(Hosono et al., 2015, Haelterman et al., 2014, Mosallanejad et al., 2010, Keleman et al., 2009.8.5, Perkins et al., 2009, Lee et al., 2008, Bourbon et al., 2002, King-Jones, 2001.3.12, Benos, 2000.12.13)

CG3600

(Sen et al., 2013, Keleman et al., 2009.8.5, Grieder et al., 2007, Comet et al., 2006, Manak et al., 2006, Manak et al., 2006)

CG42527

(FlyBase Genome Annotators, 2008)

CG43692

(FlyBase Genome Annotators, 2012)

CG43934

(Fukuoh et al., 2014, FlyBase Genome Annotators, 2012, Ni et al., 2010.12.1)

EG:133E12.2

(Boutros et al., 2004, Benos et al., 2001)

EG:BACH61I5.1

(Ringrose et al., 2003, Benos et al., 2001)

EP(X)1232

(Pena-Rangel et al., 2002)

EP1232

(Tseng and Hariharan, 2002, Abdelilah-Seyfried et al., 2000)

GRF

(Laudet, 2004.6.14)

HR4

(Gao et al., 2020, Ou et al., 2016, Fahrbach et al., 2012)

NR6A2

(King-Jones and Thummel, 2005, Laudet, 2004.6.14)

hr4

(Mazina et al., 2022, Mark et al., 2021, Mazina et al., 2021, Mazina et al., 2020, Mazina et al., 2019, Mazina et al., 2017)

null

Name Synonyms

Hormone receptor 4

(Graves et al., 2020)

Hr4

Secondary FlyBase IDs

FBgn0043372
FBgn0026087
FBgn0023546
FBgn0263775
FBgn0260432

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 79 )

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.

31162

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.

Q9W539

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

Q9W539

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.

Q9W539

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0264562

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

31162/tissue=All

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

FBgn0264562

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

FBgn0264562

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

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

dme:Dmel_CG43934

MARRVEL_MODEL - MARRVEL (model organism gene)

31162

Linkouts

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

FBgn0264562

DroID - A comprehensive database of gene and protein interactions.

FBgn0264562

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

Hr4_1
Hr4_2

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0264562

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

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

FBgn0264562

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

TC000543

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

Interactive Fly

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

31162

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

Nuclear Receptor transcription pathway

References (130)

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

-0.33

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