A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\Hr4

General Information
SymbolDmel\Hr4SpeciesD. melanogaster
NameHr4Annotation symbolCG16902
Feature typeprotein_coding_geneFlyBase IDFBgn0023546
Created / Updated2005-09-09/2005-09-09
Genomic Location
Chromosome (arm)XRecombination map
Cytogenetic map2C1-2C1Sequence locationX:1,891,620..1,898,128 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
This gene is referred to in FlyBase by the symbol Hr4 (CG16902, FBgn0023546). It has the cytological map location 2C1. Its sequence location is X:1891620..1898128. Its molecular function is described as: ligand-dependent nuclear receptor activity; steroid hormone receptor activity; zinc ion binding; sequence-specific DNA binding; transcription factor activity. It is involved in the biological processes: growth; pupariation; steroid hormone receptor signaling pathway; metamorphosis; regulation of transcription, DNA-dependent. 7 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.

External Summaries

hide 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
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\Hr4 for information on other features
detailed view FBtr0100515 FBpp0099955 FBti0053808
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Hr4-RC
FBtr0100515
 NM_001038734
  6112
  1518
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
Hr4-PC  
FBpp0099955  
162.7  
1518  
8.70  
  NP_001033823
  ABC67166
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Vitamin D receptor (IPR000324)
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)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE003422
AAF45702
 
AE003422
AAS65249
 
AL035245
CAA22836
 
AY971884
AAX73355
 
CO294008
 
CO294604
 
CO307928
 
CO322869
 
EC066197
 
EC074532
 
EC212692
 
EC224389
 
EC246439
 
EL871652
 
EL871774
 
EL871775
 
EL875182
 
EL875183
 
EL875313
 
EL875314
 
EL884043
 
EL884158
 
EL884159
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        lethal
        lethal | recessive
        lethal | third instar larval stage 2 | conditional - heat sensitive
        lethal | prepupal stage
        lethal | pharate adult stage, with Hr41
        lethal | pharate adult stage, with Hr4Hsp70.PK
        semi-lethal | prepupal stage | conditional - heat sensitive
        semi-lethal | pupal stage | conditional - heat sensitive
        semi-lethal | pupal stage, with Hr41
        semi-lethal | pupal stage, with Hr4Hsp70.PK
        Other Phenotypes
        Allele
        small body | pupal stage | conditional - heat sensitive
        small body | adult stage | conditional - heat sensitive
        developmental rate defective | third instar larval stage
        developmental rate defective | prepupal stage
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 3 )
        For All Classical Alleles Show

        Allele of Hr4ClassMutagenStocksKnown lesion
        Hr417C9
          		0 --
          Hr410 Yes
          Hr4PL780 --
          hide Alleles Carried on Transgenic Constructs ( 4 )
          For All Alleles Carried on Transgenic Constructs Show

          Allele of Hr4ClassMutagenStocksKnown lesion
          Hr4GD14642 Yes
          Hr4Hsp70.PK0 Yes
          Hr4dsRNA.hs
            		0 Yes
            Hr4hs.T:Scer\GAL4.T:Ivir\HA10 Yes
            hide Aneuploid Aberrations
            Useful deficiency
             
            Useful duplication
             
            hide Transgenic Constructs & Insertions
            Transgenic Constructs
            Type of construct
            Name
            Expression data
            UAS construct
            P{GD1464}
            NA
            heat-shock construct
            P{Hsp70-Hr4.PK}
            NA
            P{hs-GAL4-DHR4.LBD.HA}
            NA
            P{hs-Hr4.RNAi}
            NA
            Insertions
            Type of insertions
            Name
            Expression data
            miscellaneous insertions
            P{EP}Hr41
            NA
            insertion of enhancer trap
            P{lacW}Hr4PL78
            No
            insertion of mobile activating element
            P{EP}EP427
            NA
            hide Related Comments
            Please look at the allele reports for the complete phenotype data
            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)
            hide Gene Ontology: Function, Process & Cellular Component ( 11 )
            hide Molecular Function
            CV term
            Evidence
            References
            ligand-dependent nuclear receptor activity
            inferred from mutant phenotype
            (King-Jones et al., 2005)
            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-)
            steroid hormone receptor activity
            inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR008946
            (FlyBase Curators et al., 2004-)
            transcription factor activity
            inferred from electronic annotation with InterPro:IPR000536, InterPro:IPR001628, InterPro:IPR008946, InterPro:IPR013088
            (FlyBase Curators et al., 2004-)
            zinc ion binding
            inferred from electronic annotation with InterPro:IPR001628, InterPro:IPR013088
            (FlyBase Curators et al., 2004-)
            hide Biological Process
            CV term
            Evidence
            References
            growth
            inferred from mutant phenotype
            (King-Jones et al., 2005)
            metamorphosis
            non-traceable author statement
            (King-Jones and Thummel, 2002)
            pupariation
            inferred from mutant phenotype
            (King-Jones et al., 2005)
            regulation of transcription, DNA-dependent
            inferred from electronic annotation with InterPro:IPR000324, InterPro:IPR000536, InterPro:IPR001628, InterPro:IPR001723, InterPro:IPR008946, InterPro:IPR013088
            (FlyBase Curators et al., 2004-)
            steroid hormone receptor signaling pathway
            inferred from mutant phenotype
            (King-Jones et al., 2005)
            hide Cellular Component
            CV term
            Evidence
            References
            nucleus
            inferred from direct assay
            (King-Jones et al., 2005)
            inferred from sequence or structural similarity with UniProtKB:Q64249
            (FlyBase, 1992-)
            hide Sequence Ontology: Class of Gene
            protein_coding_gene
             
            nuclear_gene
             
            hide Interactions & Pathways
            hide Summary of Genetic Interactions
            Interacts with
            Please look at the allele data for full details of the genetic interactions
            Hr4 allele
            Gene
            References
            hide External Data
            Linkouts
            BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
            •
            Drosophila PIMRider - The Drosophila Protein Interaction map
            •
            hide Orthologs
            Genome-wide drosophilid orthologs
            Curated drosophilid orthologs
             
            Linkouts
            InParanoid orthologs - Eukaryotic orthologs
            •
            hide Functional Complementation between Species
            hide Inter-Species Misexpression Data
            Produces phenotype in
            Produces NO phenotype in
            hide Stocks & Reagents
            hide Stocks Listed in FlyBase ( 4 )
            Szeged
            -
            P{EP}EP427
            Bloomington
            10081
            P{EP}EP427 w1118
            VDRC
            v37066
            w1118; P{GD1464}v37066
            v37067
            w1118; P{GD1464}v37067
            hide Genomic Clones ( 1 )
            hide cDNA Clones ( 10 )
            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
            cDNA Clones, End Sequenced (ESTs)
            BDGP DGC clones
            Other clones
            hide RNAi & Array Information
            Affy Oligo
            Linkouts
            DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
            •
            GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
            •
            hide Antibody Information
            hide Other Information
            hide Discoverer
            hide Etymology
            hide Identification
            hide Position Effect Variegation Data
            hide 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
            Additional comments
            hide Comments About Role
            hide Comments About Molecular Function
            hide Other Comments
            hide External Crossreferences & Linkouts
            Sequence Crossreferences
            RefSeq (Transcripts)
            •
            RefSeq (Proteins)
            •
            DDBJ / EMBL / GenBank
            •
            UniProtKB/TrEMBL
            •
            Other Crossreferences
            InterPro domains - A database of protein families, domains, and functional sites
            •
            Vitamin D receptor (IPR000324)
            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
            BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
            •
            DEDB - Drosophila exon database: splicing graphs
            •
            DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
            •
            Drosophila PIMRider - The Drosophila Protein Interaction map
            •
            FLIGHT - Cell culture data for RNAi and other high-throughput technologies
            •
            FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
            •
            FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
            •
            GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
            •
            GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
            •
            InParanoid orthologs - Eukaryotic orthologs
            •
            Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
            •
            PANTHER - Protein classification by function, families, and pathways
            •
            hide Synonyms & Secondary IDs ( 6 )
            Reported As
            Symbol Synonym
            CG16902
            (Bourbon et al., 2002, King-Jones, 2001.3.12, Benos, 2000.12.13, )
            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)
            EG:133E12.2
            (Boutros et al., 2004, Benos et al., 2001, )
            GRF
            (Laudet, 2004.6.14)
            Hr4
             
            NR6A2
            (Laudet, 2004.6.14, King-Jones and Thummel, 2005)
            Name Synonym
            Hr4
             
            Secondary FlyBase IDs
              hide References ( 21 )
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              hide Recent research papers ( 2 )
              Stabell et al., 2007, Biochem. biophys. Res. Commun. 359(3): 784--789
              Drosophila dSet2 functions in H3-K36 methylation and is required for development. [FBrf0200522]
              Palanker et al., 2006, Development 133(18): 3549--3562
              Dynamic regulation of Drosophila nuclear receptor activity in vivo. [FBrf0193912]
              Show all research papers ...
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