A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\Rpn7

General Information
SymbolDmel\Rpn7SpeciesD. melanogaster
NameRpn7Annotation symbolCG5378
Feature typeprotein_coding_geneFlyBase IDFBgn0028688
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)3RRecombination map
Cytogenetic map94A15-94A15Sequence location3R:18,286,380..18,287,772 [-]
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 Rpn7 (CG5378, FBgn0028688). It has the cytological map location 94A15. Its sequence location is 3R:18286380..18287772. Its molecular function is described as endopeptidase activity. It is involved in the biological processes: proteolysis; cellular process. One allele is reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
94A15-94A15  
Limits computationally determined from genome sequence between P{PZ}l(3)rQ178rQ178 and P{lacW}Dph5L4910  
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\Rpn7 for information on other features
detailed view FBtr0112609 FBtr0112608 FBtr0084294 FBtr0084252 FBtr0084253 FBpp0111521 FBpp0111520 FBpp0083687 FBpp0083645 FBpp0083646
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Rpn7-RA
FBtr0084294
 NM_142791
  1393
  389
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
Rpn7-PA  
FBpp0083687  
45.4  
389  
6.44  
  NP_651048
  AAF56000
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
•
Proteasome component region PCI (IPR000717)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA940908
 
AE003739
AAF56000
 
AF145308
AAF08389
 
AI113847
 
AI257008
 
AI259499
 
AI296094
 
AI296428
 
AI296766
 
AI297343
 
AI387197
 
AI515356
 
AI944419
 
AW943886
 
AX260141
 
AX260144
 
AY052008
AAK93432
 
BE975335
 
BF492015
 
BF495603
 
BF497102
 
BI213217
 
BI216003
 
BI232505
 
BI234248
 
BI240451
 
BI354243
 
BI368166
 
BI369022
 
BI372037
 
BI372323
 
BI372484
 
BI565836
 
BI581688
 
BI582351
 
BI591852
 
BI606585
 
BI608813
 
BI613260
 
BI614034
 
BI629635
 
BI634489
 
BI634572
 
BP549750
 
BP549751
 
CK131852
 
CK657440
 
CK660256
 
CO155435
 
CO179322
 
CO185567
 
CO279454
 
CO292280
 
CO316262
 
CO317593
 
CO317663
 
CO332822
 
CO339912
 
EC066660
 
EC072218
 
EC077941
 
EC086549
 
EC205935
 
EC213827
 
EC227033
 
EC240120
 
EC251183
 
EC256997
 
EC262923
 
EL884739
 
EL884740
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (Oliver, 2001.8.16)
    (Hoelzl, 1999.4.23, Holzl et al., 2000, Oliver, 2001.8.16)
    (BDGP Project Members, 2000-)
    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 Microarray Data
        Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)
        Untitled Document detailed view FBtr0112609 FBtr0112608 FBtr0084294 FBtr0084252 FBtr0084253
        AI515356
        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
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 0 )
        For All Classical Alleles Show

        Allele of Rpn7ClassMutagenStocksKnown lesion
        hide Alleles Carried on Transgenic Constructs ( 1 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of Rpn7ClassMutagenStocksKnown lesion
        Rpn7GD116292 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        Useful duplication
         
        Disrupted in
        (Ryder, 2004.4.26)
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        UAS construct
        P{GD11629}
        NA
        Insertions
        Type of insertions
        Name
        Expression data
        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)
        RNAi screen using dsRNA made from templates generated with primers directed against 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 ( 5 )
        hide Molecular Function
        CV term
        Evidence
        References
        endopeptidase activity
        inferred from direct assay
        (Holzl et al., 2000)
        hide Biological Process
        CV term
        Evidence
        References
        cellular process
        inferred from mutant phenotype
        (Boutros et al., 2004)
        proteolysis
        inferred from direct assay AND inferred from sequence or structural similarity with HGNC_gene:PSMD6; HGNC:9564 AND inferred from sequence or structural similarity with SGD_LOCUS:RPN7; SGD:S0006312
        (Holzl et al., 2000)
        non-traceable author statement
        (Swiss-Prot Project Members, 2002.3.1)
        hide Cellular Component
        CV term
        Evidence
        References
        proteasome regulatory particle
        inferred from direct assay AND inferred from sequence or structural similarity with HGNC_gene:PSMD6; HGNC:9564
        (Holzl et al., 2000)
        non-traceable author statement
        (Swiss-Prot Project Members, 2002.3.1)
        proteasome regulatory particle, lid subcomplex
        non-traceable author statement
        (Hoelzl, 1999.4.23)
        inferred from sequence or structural similarity with SGD_LOCUS:RPN7; SGD:S0006312
        (Holzl et al., 2000)
        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
        Rpn7 allele
        Gene
        References
        hide External Data
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        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 ( 2 )
        VDRC
        v22103
        w1118; P{GD11629}v22103
        v22104
        w1118; P{GD11629}v22104
        hide Genomic Clones ( 2 )
        hide cDNA Clones ( 51 )
        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 database merge of
        Source for merge of: Rpn7 anon-WO0172774.103 anon-WO0172774.106 Source for merge of Rpn7 anon-WO0172774.103 anon-WO0172774.106 was sequence comparison (date:051113).
        (FlyBase, 1996-)
        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/Swiss-Prot
        •
        Other Crossreferences
        InterPro domains - A database of protein families, domains, and functional sites
        •
        Proteasome component region PCI (IPR000717)
        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
        •
        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
        •
        PANTHER - Protein classification by function, families, and pathways
        •
        University of Chicago Dev. Expression
        •
        hide Synonyms & Secondary IDs ( 6 )
        Reported As
        Symbol Synonym
        141231_at
        (Kristensen et al., 2005)
        anon-WO0172774.103
         
        anon-WO0172774.106
         
        CG5378
         
        p42A
        (Sumegi et al., 2003, Kurucz et al., 2002, Holzl et al., 2000)
        Rpn7
         
        Name Synonym
        Rpn7
         
        Secondary FlyBase IDs
        • FBgn0046486
        • FBgn0046488
        hide References ( 20 )
        Research paper
        Bjorklund et al., 2006, Nature 439(7079): 1009--1013
        Identification of pathways regulating cell size and cell-cycle progression by RNAi. [FBrf0191233]