A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\rho-7

General Information
SymbolDmel\rho-7SpeciesD. melanogaster
Namerhomboid-7Annotation symbolCG8972
Feature typeprotein_coding_geneFlyBase IDFBgn0033672
Created / Updated2003-12-02/2003-12-02
Genomic Location
Chromosome (arm)2RRecombination map
Cytogenetic map48D5-48D5Sequence location2R:7,874,219..7,876,261 [-]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene rhomboid-7 is referred to in FlyBase by the symbol rho-7 (CG8972, FBgn0033672). It has the cytological map location 48D5. Its sequence location is 2R:7874219..7876261. Its molecular function is unknown. It is involved in the biological process mitochondrial fusion. 4 alleles are reported. The phenotypes of these alleles are annotated with: testis; spermatozoon; mitochondrion; Nebenkern; seminal vesicle; indirect flight muscle; eye photoreceptor cell; rhabdomere. It has one annotated transcript and one annotated polypeptide.

External Summaries

hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
48D5-48D5  
Limits computationally determined from genome sequence between P{lacW}l(2)k06612k06612 and P{lacW}jebk05644  
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\rho-7 for information on other features
detailed view FBtr0088046 FBtr0112424 FBtr0088045 FBtr0088043 FBtr0088044 FBpp0087152 FBpp0111339 FBpp0087151 FBpp0087149 FBpp0087150 FBti0043727 FBti0050350 FBti0028005 FBti0076116
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
rho-7-RA
FBtr0088045
 NM_078980
  1301
  351
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
rho-7-PA  
FBpp0087151  
38.9  
351  
10.30  
  NP_523704
  AAF58598
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
•
Peptidase S54, rhomboid (IPR002610)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE003824
AAF58598
 
AX153652
 
AY122236
AAM52748
 
BI625846
 
BP545861
 
CO178494
 
CO191329
 
CO329295
 
CO342469
 
EC059734
 
EC090175
 
EC254849
 
EL879628
 
EL881530
 
EL886413
 
EL886530
 
EL886637
 
 
UniProtKB/Swiss-Prot
    UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (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 External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Lethality
        Allele
        viable
        semi-lethal | embryonic stage
        semi-lethal | larval stage
        semi-lethal | pupal stage
        Other Phenotypes
        Allele
        short lived
        uncoordinated
        neurophysiology defective
        Sterility
        Allele
        male sterile
        Phenotype manifest in
        Allele
        testis
        spermatozoon
        mitochondrion
        Nebenkern
        seminal vesicle
        indirect flight muscle
        eye photoreceptor cell
        rhabdomere
        hide Classical Alleles ( 2 )
        For All Classical Alleles Show

        Allele of rho-7ClassMutagenStocksKnown lesion
        rho-7CB-0229-3
          		0 Yes
          rho-7pΔ1
            		0 Yes
            hide Alleles Carried on Transgenic Constructs ( 2 )
            For All Alleles Carried on Transgenic Constructs Show

            Allele of rho-7ClassMutagenStocksKnown lesion
            rho-7GD37754 Yes
            rho-7fl.T:Ivir\HA10 Yes
            hide Aneuploid Aberrations
            Useful duplication
             
            hide Transgenic Constructs & Insertions
            Transgenic Constructs
            Type of construct
            Name
            Expression data
            UAS construct
            P{GD3775}
            NA
            Insertions
            Type of insertions
            Name
            Expression data
            miscellaneous insertions
            P{RS3}CB-0229-3
            NA
            hide Related Comments
            Please look at the allele reports for the complete phenotype data
            hide Gene Ontology: Function, Process & Cellular Component ( 2 )
            hide Molecular Function
            CV term
            Evidence
            References
            hide Biological Process
            CV term
            Evidence
            References
            mitochondrial fusion
            inferred from mutant phenotype
            (McQuibban et al., 2006)
            hide Cellular Component
            CV term
            Evidence
            References
            integral to membrane
            inferred from electronic annotation with InterPro:IPR002610
            (FlyBase Curators et al., 2004-)
            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
            rho-7 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 ( 5 )
            Szeged
            -
            P{RS3}CB-0229-3
            VDRC
            v8763
            w1118 P{GD3775}v8763
            v45846
            w1118 P{GD3775}v45846
            v45845
            w1118; P{GD3775}v45845
            v45847
            w1118; P{GD3775}v45847
            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: CG8972 rho-7
            (Wasserman et al., 2000)
            Source for database merge of
            Source for merge of: rho-7 anon-WO0138581.3 Source for merge of rho-7 anon-WO0138581.3 was sequence comparison (date:051113).
            (FlyBase, 1996-)
            Additional comments
            hide Comments About Role
            hide Comments About Molecular Function
            hide Other Comments
            400bp of dsRNA generated from primer-directed transcription from genomic DNA, corresponding to the gene rho-7, when transfected into S2 cells results in a majority of cells exhibiting a highly fragmented mitochondrial network. These cells do not exhibit any extra sensitivity to cyclohexamide-induced apoptosis.
            (McQuibban et al., 2006)
            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
            •
            Peptidase S54, rhomboid (IPR002610)
            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
            •
            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
            anon-WO0138581.3
             
            CG8972
             
            PARL
            (Urban, 2006)
            rho-7
             
            Name Synonym
            rhomboid-7
            (Wasserman et al., 2000)
            Rhomboid-7
            (McQuibban et al., 2006, Urban, 2006, Whitworth et al., 2008)
            Secondary FlyBase IDs
            • FBgn0044791
            hide References ( 10 )
            Research paper
            McQuibban et al., 2006, Curr. Biol. 16(10): 982--989
            Normal mitochondrial dynamics requires rhomboid-7 and affects Drosophila lifespan and neuronal function. [FBrf0195303]
            Wasserman et al., 2000, Genes Dev. 14(13): 1651--1663
            A family of rhomboid-like genes: Drosophila rhomboid-1 and roughoid/rhomboid-3 cooperate to activate EGF receptor signaling. [FBrf0128677]
            Supplementary material
            Giot et al., 2003, Science 302(5651):
            Tables S1 to S7. [FBrf0166452]
            Review
            Urban, 2006, Genes Dev. 20(22): 3054--3068
            Rhomboid proteins: conserved membrane proteases with divergent biological functions. [FBrf0193506]
            Personal communication to FlyBase
            Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center
            RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327]
            FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms.
            Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215]
            Abstract
            Whitworth et al., 2008, A. Dros. Res. Conf. 49: 104
            Rhomboid-7 and Omi are components of the Pink1/Parkin pathway which affects mitochondrial membrane dynamics. [FBrf0203805]
            FlyBase analysis
            FlyBase, 1996-, FlyBase inference based on genome sequence analysis.
            FlyBase inference based on genome sequence analysis. [FBrf0104946]
            Computer file
            BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.
            Berkeley Drosophila Genome Project. [FBrf0125078]
            Patent
            Tononi et al., 2001.5.31, World Patent 0138581-A:
            Vigilance nucleic acids and related diagnostic, screening and therapeutic methods. [FBrf0141242]