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Gene Dmel\Hr4

General Information
Symbol	Dmel\Hr4	Species	D. melanogaster
Name	Hr4	Annotation symbol	CG43692
Feature type	protein_coding_gene	FlyBase ID	FBgn0263775
Gene Model Status	Current	Stock availability	36 publicly available
Also Known As	DHR4, CG16902, CG3600, NR6A2, EG:133E12.2, EP1232, EG:BACH61I5.1
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	2C1-2C1	Sequence location	X:1,835,973..1,899,495 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene Hr4 is referred to in FlyBase by the symbol Dmel\Hr4 (CG43692, FBgn0263775). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: ligand-dependent nuclear receptor activity. There is experimental evidence that it is involved in the biological process: growth; cellular response to hypoxia; steroid hormone receptor signaling pathway; pupariation. 57 alleles are reported. The phenotypes of these alleles are annotated with: eye; dorsocentral bristle; mesothoracic tergum; tormogen cell; scutellar bristle; wing; ommatidium. It has 5 annotated transcripts and 5 annotated polypeptides. Protein features are: Nuclear hormone receptor, ligand-binding; Nuclear hormone receptor, ligand-binding, core; Steroid hormone receptor; Zinc finger, NHR/GATA-type; Zinc finger, nuclear hormone receptor-type. Gene sequence location is X:1835973..1899495.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2011_10
FB2012_01	New/Merged/Split Record This record was either newly added to FlyBase for this release or is the result of merging or splitting existing records in this release
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 2C1-2C1   Limits computationally determined from genome sequence between P{EP}CG3600EP1232 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
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Hr4 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.43 gene_with_dicistronic_mRNA ; SO:0000722 Candidate for stop-codon suppression. Gene merge based on RNA-Seq junction and coverage data.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Hr4-RC FBtr0310570     8403   1518 Hr4-RD FBtr0310571     7719   1529 Hr4-RE FBtr0310572     9374   1842 Hr4-RF FBtr0310573     8417   1611 Hr4-RG FBtr0310574     9386   1986
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Hr4-PC   FBpp0302707   162.7   1518   8.70       Hr4-PD   FBpp0302708   163.7   1529   8.70       Hr4-PE   FBpp0302709   197.5   1842   8.03       Hr4-PF   FBpp0302710   173.2   1611   9.67       Hr4-PG   FBpp0302711   213.5   1986   8.17
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Nuclear hormone receptor, ligand-binding, core (IPR000536) Zinc finger, nuclear hormone receptor-type (IPR001628) Steroid hormone receptor (IPR001723) Nuclear hormone receptor, ligand-binding (IPR008946) Zinc finger, NHR/GATA-type (IPR013088)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AI542746   AL035245 CAA22835   AL035245 CAA22836   AQ254763   AY971884 AAX73355   BE976996   BI563637   BI565828   BI570488   BI571368   BI572990   BI590307   BT030119   CO155256   CO155629   CO177138   CO186301   CO187755   CO284677   CO287954   CO294008   CO294604   CO295064   CO296783   CO296794   CO299338   CO300315   CO307928   CO321273   CO321722   CO322555   CO322869   CO326427   CO340868   DQ327740   DQ327741   EC065011   EC066197   EC074532   EC195661   EC201784   EC212692   EC218077   EC224389   EC224818   EC225385   EC244787   EC244791   EC246439   EC247311   EC259035   EL871652   EL871774   EL871775   EL875182   EL875183   EL875313   EL875314   EL882730   EL884043   EL884158   EL884159   GH889157
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9W539 O96835 B7Z117
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. [an error occurred while processing this directive] modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal Hr417C9 lethal | pharate adult stage, with Hr41 Hr4Hsp70.PK lethal | pharate adult stage, with Hr4Hsp70.PK Hr41 lethal | prepupal stage Hr41 lethal | pupal stage, with Scer\GAL4pnr-MD237 Hr4GD11026 lethal | recessive Hr4PL78 lethal | wandering third instar larval stage | heat sensitive Hr4Hsp70.PK semi-lethal, with Scer\GAL4en-e16E Hr4EP1232 semi-lethal | prepupal stage | heat sensitive Hr4dsRNA.hs semi-lethal | pupal stage, with Hr41 Hr4Hsp70.PK semi-lethal | pupal stage, with Hr4Hsp70.PK Hr41 semi-lethal | pupal stage, with Scer\GAL4pnr-MD237 Hr4GD1464 semi-lethal | pupal stage | heat sensitive Hr4dsRNA.hs Other Phenotypes Allele body color defective, with Scer\GAL4pnr-MD237 Hr4GD1464 developmental rate defective | prepupal stage Hr41 developmental rate defective | third instar larval stage Hr41 small body | adult stage | heat sensitive Hr4dsRNA.hs small body | pupal stage | heat sensitive Hr4dsRNA.hs visible, with Scer\GAL4en-e16E Hr4EP1232 visible, with Scer\GAL4ey.PH Hr4EP1232 visible, with Scer\GAL4GMR.PF Hr4EP1232 visible, with Scer\GAL4hs.2sev Hr4EP1232 visible, with Scer\GAL4pnr-MD237 Hr4GD1464 visible, with Scer\GAL4sca-537.4 Hr4EP1232 wild-type, with Scer\GAL4ap-md544 Hr4EP1232 Phenotype manifest in Allele chaeta | supernumerary, with Scer\GAL4pnr-MD237 Hr4GD1464 dorsocentral bristle, with Scer\GAL4sca-537.4 Hr4EP1232 eye, with Scer\GAL4ey.PH Hr4EP1232 eye, with Scer\GAL4GMR.PF Hr4EP1232 eye, with Scer\GAL4hs.2sev Hr4EP1232 mesothoracic tergum, with Scer\GAL4pnr-MD237 Hr4GD1464 ommatidium, with Scer\GAL4hs.2sev Hr4EP1232 scutellar bristle, with Scer\GAL4sca-537.4 Hr4EP1232 tormogen cell, with Scer\GAL4sca-537.4 Hr4EP1232 wing, with Scer\GAL4en-e16E Hr4EP1232
Classical Alleles ( 47 )
For All Classical Alleles Show
Allele of Hr4 Class Mutagen Stocks Known lesion Hr45-HA-1598 1 -- Hr45-SZ-3682 1 -- Hr45-SZ-4091 1 -- Hr4BG01273 1 -- Hr4BG01752 1 -- Hr4c03178 1 -- Hr4c05577 1 -- Hr4d00604 1 -- Hr4d01238 1 -- Hr4d03978 1 -- Hr4d05558 1 -- Hr4d05930 1 -- Hr4d09591 1 -- Hr4d11108 1 -- Hr4e01886 1 -- Hr4EP1232 P-element activity 1 -- Hr4EY20645 1 -- Hr4f02909 1 -- Hr4f06490 1 -- Hr4G0257b 1 -- Hr4KG00928 1 -- Hr4NP3258 1 -- Hr4NP3383 1 -- Hr4NP3468 1 -- Hr4NP5906 1 -- Hr4NP6011 1 -- Hr417C9 0 -- Hr41 Delta2-3 0 Yes Hr45-HA-2104 0 -- Hr45-HA-2120 0 -- Hr45-HA-2624 0 -- Hr4d01059 0 -- Hr4d04793 0 -- Hr4d05310 0 -- Hr4d05936 0 -- Hr4d06495 0 -- Hr4d07038 0 -- Hr4d07833 0 -- Hr4d09433 0 -- Hr4d11610 0 -- Hr4EP1549 0 -- Hr4GG01181 0 -- Hr4GG01378 0 -- Hr4GG01571 0 -- Hr4GG01619 0 -- Hr4NP7262 0 -- Hr4PL78 Delta2-3 0 --
Alleles Carried on Transgenic Constructs ( 10 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Hr4 Class Mutagen Stocks Known lesion Hr4GD11026 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Hr4GD1464 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Hr4hs.T:Scer\GAL4.T:Ivir\HA1 in vitro construct - regulatory fusion in vitro construct - coding region fusion 2 Yes Hr4HM05260 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Hr4KK110027 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Hr4KK110718 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Hr4KK111562 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Hr4dsRNA.hs 0 Yes Hr4Hsp70.PK in vitro construct - regulatory fusion 0 Yes Hr4tCH322-137G06 in vitro construct - genomic fragment 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD1464} NA P{KK110718} NA P{KK111562} NA P{TRiP.HM05260} NA heat-shock construct P{hs-GAL4-DHR4.LBD.HA} NA P{hs-Hr4.RNAi} NA P{Hsp70-Hr4.PK} NA characterization construct PBac{CH322-137G06} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}EP427 NA P{EP}Hr41 NA P{EP}Hr4EP1232 NA P{EP}Hr4EP1549 NA P{EPgy2}Hr4EY20645 NA P{Mae-UAS.6.11}B2007B2007 NA P{Mae-UAS.6.11}GG01274GG01274 NA P{Mae-UAS.6.11}GG01510GG01510 NA P{Mae-UAS.6.11}Hr4GG01181 NA P{Mae-UAS.6.11}Hr4GG01378 NA P{Mae-UAS.6.11}Hr4GG01571 NA P{Mae-UAS.6.11}Hr4GG01619 NA P{XP}Hr4d00604 NA P{XP}Hr4d01059 NA P{XP}Hr4d01238 NA P{XP}Hr4d03978 NA P{XP}Hr4d04793 NA P{XP}Hr4d05310 NA P{XP}Hr4d05558 NA P{XP}Hr4d05930 NA P{XP}Hr4d05936 NA P{XP}Hr4d06495 NA P{XP}Hr4d07038 NA P{XP}Hr4d07833 NA P{XP}Hr4d09433 NA P{XP}Hr4d09591 NA P{XP}Hr4d11108 NA P{XP}Hr4d11610 NA miscellaneous insertions P{GT1}Hr4BG01273 NA P{GT1}Hr4BG01752 NA P{RS5}Hr45-HA-1598 NA P{RS5}Hr45-HA-2104 NA P{RS5}Hr45-HA-2120 NA P{RS5}Hr45-HA-2624 NA P{RS5}Hr45-SZ-3682 NA P{RS5}Hr45-SZ-4091 NA P{SUPor-P}Hr4KG00928 NA PBac{PB}Hr4c03178 NA PBac{PB}Hr4c05577 NA PBac{RB}Hr4e01886 NA PBac{WH}Hr4f02909 NA PBac{WH}Hr4f06490 NA insertion of enhancer trap binary system P{GawB}Hr4NP3258 No P{GawB}Hr4NP3383 No P{GawB}Hr4NP3468 No P{GawB}Hr4NP5906 No P{GawB}Hr4NP6011 No P{GawB}Hr4NP7262 No insertion of enhancer trap P{lacW}Hr4G0257b No P{lacW}Hr4PL78 No
Gene Ontology: Function, Process & Cellular Component ( 13 unique terms )
Terms Based on Experimental Evidence ( 6 terms )
Molecular Function
CV term Evidence References
ligand-dependent nuclear receptor activity inferred from mutant phenotype (assigned by UniProtKB) (King-Jones et al., 2005)
Biological Process
CV term Evidence References
cellular response to hypoxia inferred from mutant phenotype (Lee et al., 2008) growth inferred from mutant phenotype (assigned by UniProtKB) (King-Jones et al., 2005) pupariation inferred from mutant phenotype (assigned by UniProtKB) (King-Jones et al., 2005) steroid hormone receptor signaling pathway inferred from mutant phenotype (assigned by UniProtKB) (King-Jones et al., 2005)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (assigned by UniProtKB) (King-Jones et al., 2005)
Terms Based on Predictions or Assertions ( 9 terms )
Molecular Function
CV term Evidence References
ligand-dependent nuclear receptor activity inferred from sequence or structural similarity with UniProtKB:Q64249 (FlyBase, 1992-) non-traceable author statement (Maglich et al., 2001) sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001628 (FlyBase Curators et al., 2004-) sequence-specific DNA binding transcription factor activity inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR001628, InterPro:IPR008946 (FlyBase Curators et al., 2004-) steroid hormone receptor activity inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR001723, InterPro:IPR008946 (FlyBase Curators et al., 2004-) zinc ion binding inferred from electronic annotation with InterPro:IPR001628, InterPro:IPR013088 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
metamorphosis non-traceable author statement (King-Jones and Thummel, 2002) regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR001628, InterPro:IPR001723, InterPro:IPR008946, InterPro:IPR013088 (FlyBase Curators et al., 2004-) steroid hormone mediated signaling pathway inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR008946 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with UniProtKB:Q64249 (FlyBase, 1992-)
Sequence Ontology: Class of Gene
	gene_with_dicistronic_mRNA (FlyBase Genome Annotators, 2008) nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Hr4 allele Gene References CG3600EP1232 pnr (Pena-Rangel et al., 2002) unspecified grim (Mueller et al., 2005) H (Mueller et al., 2005) p53 (Mueller et al., 2005) rpr (Mueller et al., 2005) W (Mueller et al., 2005)
External Data
Linkouts
Orthologs
Genome-wide drosophilid orthologs	Dana\GF22191 Dere\GG12895 Dere\GG12896 Dgri\GH12110 Dmoj\GI15166 Dper\GL15259 Dpse\GA22933 Dsec\GM19186 Dsim\GD16580 Dvir\GJ14872 Dwil\GK25182
Curated drosophilid orthologs	Dpse\GA14207   Dpse\GA17550
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 36 )
Harvard	- P{XP}Hr4d00604 - P{XP}Hr4d01238 - P{XP}Hr4d03978 - P{XP}Hr4d05558 - P{XP}Hr4d05930 - P{XP}Hr4d09591 - P{XP}Hr4d11108 - PBac{PB}Hr4c03178 - PBac{PB}Hr4c05577
VDRC	v101865 P{KK110027}VIE-260B v102096 P{KK110718}VIE-260B v102361 P{KK111562}VIE-260B
	More stocks available...
Genomic Clones ( 2 )
	BACR05N09 BACR33I18 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 GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones	IP12727
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RH02831 RH03910 RH06248 RH08569 RH34310 RH63654 SD09196
Other clones	34219 34283 62111 62609 75171 75267 76284 81497 81607 103625 104372 153075 214545.48 bs58f10 CK01.38D.E6 CK01.66C.E11 EK018559 EK032751 EK052618 EK067410 EK166534 EK175124 EK177928 EK186244 EK188360 EK189112 EK205358 EK207261 EK208520 EK215145 EK215160 EK256216 EK290621 EN05725 EN06443 EP03908 EP11501 IP03726 IP03826 IP12427 IP15213 IP15313 IP15413 IP15513 RP003552118
RNAi & Array Information
Linkouts
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Hr4 EG:133E12.2 (King-Jones, 2001.3.12)
Source for database merge of	Source for merge of: CG3600 EP1232 (Mueller et al., 2005) Source for merge of: Hr4 CG3600 (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) One or more of the processed transcripts for these genes contain two non-overlapping open reading frames (ORFs). The non-overlapping ORFs are represented by CG42527 (FBgn0260432) and CG16902, Hr4 (FBgn0023546). (FlyBase Genome Annotators, 2008)
Other Comments
	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)
External Crossreferences & Linkouts
Sequence Crossreferences
	DDBJ / EMBL / GenBank • AAF45701 AAF45702.3 AAS65249.1 AAX73355 ABC67166 ACL82879 ACL82880 AL035245 AQ254763 AY971884 CAA22835 CAA22836 DQ327740 DQ327741 Entrez Gene - A searchable database of RefSeq genes. • 31161 31162 UniProtKB/TrEMBL • B7Z117 O96835 Q9W539
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Nuclear hormone receptor, ligand-binding, core (IPR000536) Zinc finger, nuclear hormone receptor-type (IPR001628) Steroid hormone receptor (IPR001723) Nuclear hormone receptor, ligand-binding (IPR008946) Zinc finger, NHR/GATA-type (IPR013088)
Linkouts
Synonyms & Secondary IDs ( 11 )
Reported As
Symbol Synonym	CG3600 (Grieder et al., 2007, Comet et al., 2006, Keleman et al., 2009.8.5, Manak et al., 2006, Manak et al., 2006) CG16902 (Bourbon et al., 2002, King-Jones, 2001.3.12, Benos, 2000.12.13, Lee et al., 2008, Keleman et al., 2009.8.5, Perkins et al., 2009) CG43692 (FlyBase Genome Annotators, 2012) DHR4 (Shingleton, 2005, King-Jones et al., 2004, Sullivan and Thummel, 2003, King-Jones and Thummel, 2002, King-Jones et al., 2001, Palanker et al., 2006, King-Jones and Thummel, 2005, Stabell et al., 2007, Kozlova et al., 2009, de Rosny et al., 2008, Dubrovsky et al., 2011) EG:133E12.2 (Boutros et al., 2004, Benos et al., 2001, ) EG:BACH61I5.1 (Ringrose et al., 2003, Benos et al., 2001, ) EP1232 (Tseng and Hariharan, 2002, Abdelilah-Seyfried et al., 2000, ) EP(X)1232 (Pena-Rangel et al., 2002) GRF (Laudet, 2004.6.14) Hr4 (Comet et al., 2006, Lee et al., 2008, Venken et al., 2009) NR6A2 (Laudet, 2004.6.14, King-Jones and Thummel, 2005)
Name Synonym	Hr4
Secondary FlyBase IDs
	FBgn0023546 FBgn0026087 FBgn0043372
References ( 42 )
Generate a list of	All references relating to this gene ( 42 )
List References by type	Research paper  ( 18 ) Supplementary material  ( 4 ) Review  ( 2 ) Personal communication to FlyBase  ( 7 ) Abstract  ( 4 ) FlyBase analysis  ( 4 ) Computer file  ( 1 ) Curated genome annotation  ( 1 ) Automatic genome annotation  ( 1 )
Recent research papers ( 1 )
	Dubrovsky et al., 2011, J. Biol. Chem. 286(38): 33689--33700 The Drosophila FTZ-F1 Nuclear Receptor Mediates Juvenile Hormone Activation of E75A Gene Expression through an Intracellular Pathway. [FBrf0215576] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...