FB2020_06, released Dec 22, 2020

Gene: Dmel\rux

Open Close
General Information
Symbol
Dmel\rux
Species
D. melanogaster
Name
roughex
Annotation Symbol
CG4336
Feature Type
protein_coding_gene
FlyBase ID
FBgn0003302
Gene Model Status
Current
Stock Availability
18 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
5D2-5D2
Sequence location
X:6,035,753..6,037,800 [-]
Recombination map

1-15

RefSeq locus
NC_004354 REGION:6035753..6037800
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (5 terms)
Molecular Function (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (4 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
involved_in mitotic cell cycle
inferred from mutant phenotype
(Foley and Sprenger, 2001)
involved_in regulation of cell cycle
inferred from mutant phenotype
(Avedisov et al., 2000)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in regulation of exit from mitosis
traceable author statement
(Lee and Orr-Weaver, 2003)
involved_in regulation of meiotic nuclear division
traceable author statement
(Fuller, 1998)
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Avedisov et al., 2000, Foley et al., 1999)
Terms Based on Predictions or Assertions (0 terms)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Protein Function (UniProtKB)
Negative regulator of both mitosis and meiosis. Required for the establishment of the G1 phase in the developing eye.
(UniProt, P50445)
Phenotypic Description (Red Book; Lindsley and Zimm 1992)
rux: roughex
Eyes smaller than wild type and uniformly rough. Male sterile. RK2.
Summary (Interactive Fly)

novel regulator of cell cycle - a cyclin dependent kinase inhibitor that specifically inhibits Cdk1-CycA - required to inhibit Cdk1-CycA kinase activity during metaphase, thereby facilitating the transition to anaphase

Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\rux 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
Comments on Gene Model

Gene model reviewed during 5.46

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

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
rux-RA
FBtr0070889
NM_078498
1420
335
rux-RB
FBtr0307288
NM_001258611
1319
335
Additional Transcript Data and Comments
Reported size (kB)

1.9, 1.3 (northern blot)

(Thomas et al., 1994)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
rux-PA
FBpp0070854
37.9
335
5.13
NP_511053
AAF46113
rux-PB
FBpp0298289
37.9
335
5.13
NP_001245540
AFH07254
Polypeptides with Identical Sequences

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

335 aa isoforms: rux-PA, rux-PB
Additional Polypeptide Data and Comments
Reported size (kDa)

335 (aa)

(Thomas et al., 1994)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

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

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
distribution deduced from reporter or direct label
Stage
Tissue/Position (including subcellular localization)
Reference
spermatogenesis & adult stage | male
testis
(Franklin-Dumont et al., 2007)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Avedisov et al., 2000, Foley et al., 1999)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\rux in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 9-10
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 12 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 16 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of rux
Transgenic constructs containing regulatory region of rux
Deletions and Duplications ( 20 )
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (0)
No records found.
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (0)
No records found.
Rattus norvegicus (Norway rat) (0)
No records found.
Xenopus tropicalis (Western clawed frog) (0)
No records found.
Danio rerio (Zebrafish) (0)
No records found.
Caenorhabditis elegans (Nematode, roundworm) (0)
No records found.
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190BVO )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00008211
Drosophila simulans
Dsim\rux
Drosophila sechellia
Dsec\rux
Drosophila erecta
Dere\rux
Drosophila yakuba
Dyak\rux
Drosophila ananassae
Dana\GF22065
Drosophila pseudoobscura pseudoobscura
Dpse\GA18118
Drosophila persimilis
Dper\GL14959
Drosophila willistoni
Dwil\GK19724
Drosophila virilis
Dvir\GJ16032
Drosophila mojavensis
Dmoj\GI16487
Drosophila grimshawi
Dgri\GH17896
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
No non-Arthropod Metazoa orthologies identified
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    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 v8.0 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?
    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
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement
    View in Interactions Browser
    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    rux
    enhanceable
    ast
    (Thomas et al., 1994)
    rux
    suppressible
    CycA
    (Dong et al., 1997, Gonczy et al., 1994, Thomas et al., 1994)
    rux
    suppressible
    CycB
    (Gonczy et al., 1994)
    rux
    enhanceable
    ebi
    (Dong et al., 1999)
    rux
    enhanceable
    Ras85D
    (Thomas et al., 1994)
    rux
    suppressible
    Rca1
    (Dong et al., 1997)
    rux
    suppressible
    S(rux)2C
    (Dong et al., 1997)
    rux
    enhanceable
    S
    (Thomas et al., 1994)
    rux
    suppressible
    stg
    (Dong et al., 1997, Thomas et al., 1994)
    rux
    suppressible
    swm
    (Casso et al., 2008, Dong et al., 1997)
    rux
    suppressible
    twe
    (Gonczy et al., 1994, Thomas et al., 1994)
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    CycA
    suppressible
    rux
    (Foley and Sprenger, 2001)
    CycA
    enhanceable
    rux
    (Foley and Sprenger, 2001)
    CycA
    suppressible
    Cdk1|rux
    (Foley et al., 1999)
    CycA|Cdk1
    suppressible
    rux
    (Foley et al., 1999)
    CycE
    suppressible
    rux
    (Brumby et al., 2004, Secombe et al., 1998)
    CycE
    enhanceable
    rux
    (Secombe et al., 1998)
    enc
    suppressible
    rux
    (Ohlmeyer and Schupbach, 2003)
    Myt1
    suppressible
    rux
    (Varadarajan et al., 2016)
    upd1
    suppressible
    rux
    (Mukherjee et al., 2006)
    Wee1
    enhanceable
    rux
    (Price et al., 2002)
    External Data
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    X
    Recombination map

    1-15

    Cytogenetic map
    5D2-5D2
    Sequence location
    X:6,035,753..6,037,800 [-]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    5D2-5D2
    Limits computationally determined from genome sequence between P{EP}EP1457EP1457&P{EP}CG5928EP1083 and P{EP}EP1311&P{EP}EP1384
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location

    1-15

    (FlyBase, 2016)

    1-15.8

    (Comeron et al., 2012)

    1-15.0

    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (18)
    Genomic Clones (16)
     

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

    cDNA Clones (23)
     

    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
    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.

    cDNA Clones, End Sequenced (ESTs)
    BDGP DGC clones
    Other clones
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    Antibody Information
    Laboratory Generated Antibodies
     
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of

    Source for identity of: rux CG4336

    (Zhao, 1999.11)
    Source for database merge of
    Additional comments
    Other Comments

    Shows particularly robust cycling of transcription in adult heads, as assessed by expression analysis using high density oligonucleotide arrays with probe generated during three 12-point time course experiments over the course of 6 days.

    (Claridge-Chang et al., 2001)

    rux is involved in mitotic exit.

    (Foley and Sprenger, 2001)

    rux is a distinct and specialised cell cycle inhibitor for CycA dependant kinase activity.

    (Avedisov et al., 2000)

    rux is a cyclin dependent kinase inhibitor (CKI) specific for mitotic cyclin-cdk complexes.

    (Foley et al., 1999)

    The mechanism by which dpp mediates G1 arrest in the morphogenetic furrow does not require rux.

    (Horsfield et al., 1998)

    In vitro studies demonstrate rux binds CycE but does not inhibit CycE-Cdk activity directly. Overexpression studies suggest the ectopic rux converts the mitotic cycle into an endoreplication cycle by down-regulating CycA-associated kinase activity.

    (Thomas et al., 1997)

    rux acts genetically to negatively regulate CycA and stg.

    (Thomas et al., 1995)

    rux is a dose-dependent regulator of meiosis II during spermatogenesis. rux appears to act through CycA during premeiotic G2 to regulate meiosis II.

    (Gonczy et al., 1994)

    rux functions as a negative regulator of G1 progression in the developing eye.

    (Thomas et al., 1994)

    The rux mutant phenotype is due to a developmental defect: pattern formation defect.

    (Renfranz and Benzer, 1989)
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 37 )
    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.
    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/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
    UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
    Other crossreferences
    BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
    Flygut - An atlas of the Drosophila adult midgut
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    InterPro - A database of protein families, domains and functional sites
    KEGG Genes - Molecular building blocks of life in the genomic space.
    modMine - A data warehouse for the modENCODE project
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DPiM - Drosophila Protein interaction map
    DroID - A comprehensive database of gene and protein interactions.
    DRSC - Results frm RNAi screens
    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
    FlyMine - An integrated database for Drosophila genomics
    Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (6)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (117)