• Home
• Tools
  • Tools Overview
  • Query Tools

    
    • QuickSearch
    • QueryBuilder
    • TermLink
    • CytoSearch
    • Interactions Browser
    • ImageBrowse
    • Find A Person
    • Google™ FlyBase
  • Genomic/Map Tools

    
    • BLAST
    • GBrowse
    • CytoSearch
    • Aberrations Maps
    • Chromosome Maps
    • Coordinates Converter
  • Retrieve/Convert

    
    • Batch Download
    • Coordinates Converter
    • ID Converter
  • Data Submission

    
    • Fast-Track Your Paper
    • Submit Personal Comm
    • Add A New Person
    • Update Person Info
  • People

    
    • Find A Person
    • Add A New Person
    • Update Person Info
• Files
  • Files Overview
  • Downloads:
  • Precomputed files
  • Archived data
  • Releases (FTP)
  • Genomes (FTP)
  • AAA data (FTP)
  • Lists:
  • Transposons (Dmel)
  • Transposons (other)
  • Vectors & Constructs
  • Anatomical Terms
  • Map Conversion
• Species
  • Phylogeny
  • Sequenced Species
  • Synteny Table
  • Color Illustrations
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All Resources
  • Model Organisms
  • Stock Collections
  • Other links:
  • BDGP
  • DGRC
  • FlyExpress
  • Interactive Fly
  • modENCODE
  • Textpresso for Fly
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • FlyBase Guides
  • Video Tutorials
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Contact FlyBase
• Archives
  • Prior Release
  • Other Archives
  • Coordinate Converter

Gene Dmel\ro

General Information
Symbol	Dmel\ro	Species	D. melanogaster
Name	rough	Annotation symbol	CG6348
Feature type	protein_coding_gene	FlyBase ID	FBgn0003267
Gene Model Status	Current	Stock availability	87 publicly available
Genomic Location
Chromosome (arm)	3R	Recombination map	3-91.1
Cytogenetic map	97D4-97D5	Sequence location	3R:22,702,493..22,706,893 [-]
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 rough is referred to in FlyBase by the symbol Dmel\ro (CG6348, FBgn0003267). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: RNA polymerase II regulatory region DNA binding. There is experimental evidence that it is involved in the biological process: R2/R5 cell differentiation; positive regulation of transcription from RNA polymerase II promoter. 71 alleles are reported. The phenotypes of these alleles are annotated with: photoreceptor cell R7; eye; retina; macrochaeta; primary pigment cell; cone cell; eye photoreceptor cell; lens; ommatidium; morphogenetic furrow. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Homeobox; Homeobox, conserved site; Homeobox, eukaryotic; Homeodomain-like; Homeodomain-related. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very low expression to a trough of extremely low expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the larval period, at stages throughout the pupal period, in adult male stages. Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. Comments on Affy2 ProbeSet: ProbeSet 1627585_a_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of ro. Gene sequence location is 3R:22702493..22706893.
External Summaries
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	ro: rough Homozygotes have rough eyes; slightly smaller and narrower than wild type. Approximately normal numbers of facets but arrangement irregular; frequently have fewer and sometimes more than eight retinula cells; some facets missing such that three ommatidial bristles juxtaposed; other facets fused (Stemm-Tegethoff and Dicke, 1974, Theoret. Appl. Genet. 44: 262-65; Ready et al.). Fiber pathways through lamina and into medulla in considerable disarray; optic chiasma between the two replaced by parallel fibers; laminar cartridge and medullar columns deranged, ventral epithelial nuclear row absent; medulla displaced from normal position and rotated anteriorly. Mosaic studies demonstrate that phenotype is eye autonomous; i.e., the genotype of the eye dictates that of the underlying nervous elements. Expression, as determined by in situ hybridization found in the eye-antenna imaginal disk, especially in the region of the morphogenetic furrow, as well as in a specific area of the brain. No evidence of embryonic expression (Saint, Kalionis, Lockett, and Elizur, 1988, Nature (London) 334: 151-54). RK1.
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.
FB2012_01	Controlled Vocabulary Terms positive regulation of transcription from RNA polymerase II promoter RNA polymerase II regulatory region DNA binding Sequence features HFA17046 BKN31360 References Fan et al., 2010, Cell Death Differ. 17(6): 912--921
FB2011_10
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 97D4-97D5   Limits computationally determined from genome sequence between P{lacW}His2AvL1602 and P{PZ}sda03884
Experimentally Determined Cytological Location
Cytogenetic map Notes References 97D2-97D3   (determined by in situ hybridisation)   (Ranz et al., 2001) 97D3-97D5   (determined by in situ hybridisation)   (Saint et al., 1988) 97D5-97D7   (determined by in situ hybridisation)   (Tomlinson et al., 1988)
Experimentally Determined Recombination Data
Location	3-91.1
Left of (cM)
Right of (cM)	Mar (Whittle, 1977)
Notes	Maps adjacent to l(3)97Db. (Knibb et al., 1993)
Gene Model & Products
Please see the GBrowse view of Dmel\ro for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) ro-RA FBtr0085090  NM_079797   1189   350 ro-RB FBtr0085091  NM_170294   1241   350
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 ro-PA   FBpp0084460   39.4   350   9.72     NP_524521   AAF56635 ro-PB   FBpp0084461   39.4   350   9.72     NP_733173   AAN14093
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Homeobox, conserved site (IPR017970) Homeobox (IPR001356) Homeodomain-like (IPR009057) Homeodomain-related (IPR012287) Homeobox, eukaryotic (IPR020479)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014297 AAF56635   AE014297 AAN14093   BT022142   CO305459   EC203439   M23629 AAA56800   X12528 CAC32035
UniProtKB/Swiss-Prot	P10181
UniProtKB/TrEMBL
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 protein binding site FBsf0000159918 3R:22,707,723..22,707,747 bound_moiety=ro-XP comment=ro protein binds to its own promoter/enhancer region. evidence=experimental (Heberlein et al., 1994) protein binding site FBsf0000159919 3R:22,703,993..22,704,018 bound_moiety=ro-XP comment=ro protein binds to its own promoter/enhancer region. evidence=experimental (Heberlein et al., 1994)
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference third instar larval stage   mystery cell   (Freeman et al., 1992) wandering third instar larval stage   morphogenetic furrow   • nucleus (Kimmel et al., 1990) photoreceptor cell R8   • nucleus (Kimmel et al., 1990) mystery cell   • nucleus (Kimmel et al., 1990) wandering third instar larval stage -- pupal stage P7   photoreceptor cell R2   • nucleus (Kimmel et al., 1990) photoreceptor cell R3   • nucleus (Kimmel et al., 1990) photoreceptor cell R4   • nucleus (Kimmel et al., 1990) photoreceptor cell R5   • nucleus (Kimmel et al., 1990)
Additional Descriptive Data
	In addition to the wild type staining in receptor cells R2, R3, R4, and R5, additional staining is observed in the position of the mystery cell in the rho[hs.sev] line. (Freeman et al., 1992)
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. modENCODE Temporal Expression Data for FBgn0003267    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0003267 Very low expression bin max Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very low expression to a trough of extremely low expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the larval period, at stages throughout the pupal period, in adult male stages. [download data (TSV)] Guide to modENCODE expression level colors   No expression (0 - 0)   Extremely low expression (1 - 10)   Very low expression (11 - 100)   Low expression (101 - 400)   Moderate expression (401 - 1400)   Moderately high expression (1401 - 4000)   High expression (4001 - 10000)   Very high expression (10001 - 100000)   Extremely high expression (100001 - 2000000) Linear, scaled to maximum FBgn0003267 expression level Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0003267 expression level Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    5 embryo 02-04hr    7 embryo 04-06hr    20 embryo 06-08hr    26 embryo 08-10hr    29 embryo 10-12hr    36 embryo 12-14hr    39 embryo 14-16hr    39 embryo 16-18hr    23 embryo 18-20hr    25 embryo 20-22hr    14 embryo 22-24hr    12 larva L1    13 larva L2    12 larva L3 12hr old    7 larva L3 puffstage 1-2    38 larva L3 puffstage 3-6    92 larva L3 puffstage 7-9    65 white prepupae new    54 white prepupae 12hr    81 white prepupae 24hr    65 pupae 2d postWPP    25 pupae 3d postWPP    13 pupae 4d postWPP    16 adult male 01day    13 adult male 05day    24 adult male 30day    32 adult female 01day    10 adult female 05day    9 adult female 30day    10 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     FlyAtlas Anatomical Expression Data for FBgn0003267    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0003267 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (1000 - 25000) Linear, scaled to maximum FBgn0003267 expression level Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0003267 expression level Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    1.35 Larval Midgut    3.3 Larval Hindgut    0.9 Larval Malpighian Tubules    1.2 Larval Fat Body    1.4 Larval Salivary Gland    1.3 Larval Trachea    0.725 Larval Carcass    0.95 Adult Head    1.3 Adult Eye    0.75 Adult Brain    0.8 Adult Thoracic-Abdominal Ganglion    1 Adult Crop    2.8 Adult Midgut    1.6 Adult Hindgut    0.8 Adult Malpighian Tubules    2.1 Adult Fat Body    2.7 Adult Salivary Gland    8 Adult Heart    0.675 Adult VirginFemale Spermatheca    2.1 Adult InseminatedFemale Spermatheca    2.6 Adult Ovary    0.6 Adult Testis    3.7 Adult Male Accessory Gland    1.4 Adult Carcass    2.4 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland     Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland     Adult Carcass     FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    1.3   NA  Eye    0.75   NA  Brain    0.8   1.35  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    1   NA  Crop    2.8   3.3  Midgut    1.6   0.9  Hindgut    0.8   1.2  Malpighian Tubules    2.1   1.4  Fat Body    2.7   1.3  Salivary Gland    8   NA  Heart    0.675   0.725  Trachea    NA   NA  VirginFemale Spermatheca    2.1   NA  InseminatedFemale Spermatheca    2.6   NA  Ovary    0.6   NA  Testis    3.7   NA  Male Accessory Gland    1.4   0.95  Carcass    2.4 modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_25
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003267 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG6348-RB
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | heat sensitive rohs.PB lethal | pupal stage, with Scer\GAL4pnr-MD237 roGD1520 lethal | recessive roX13 viable roC2.3 roCC1.2 roV2.1 roX3.1 Other Phenotypes Allele planar polarity defective | recessive ro1 visible ro237A ro237B ro252 roC2.3 roC2 roCC1.2 roDOM rohs.sev1 roV2.1 roX3.1 visible | dominant roDOM visible | heat sensitive roR52C roR52L visible | recessive roK81-2 roK81-3 roK81-4 roK81-5 rounspecified roX13 rox63 wild-type ro+t5.8 ro+t6.8 ro+t8.6 ro+tC4 ro+tC5 ro+tC6 ro+tHa Phenotype manifest in Allele cone cell rohs.2sev rohs.sev1 rosev.PI rosev.PII eye ro+t6.8 roC2.3 roCC1.2 roDOM roK81-2 roK81-3 roK81-4 roK81-5 roV2.1 roX3.1 rohs.PI rohs.PII rohs.sev1 rosev.PI rosev.PII rounspecified rox63 eye, with Scer\GAL4lz-gal4 roScer\UAS.cFa eye | heat sensitive rohs.PB eye photoreceptor cell ro1 rohs.PI rohs.PII rox63 eye photoreceptor cell, with roH3 row eye photoreceptor cell, with row roH3 lens rosev.PI rosev.PII macrochaeta rosev.PI rosev.PII morphogenetic furrow roDOM ommatidium ro1 ro237A ro237B ro252 roC2 roDOM rohs.PI rohs.PII rohs.sev1 rox63 ommatidium, with roH3 row ommatidium, with row roH3 ommatidium | heat sensitive rohs.PB photoreceptor cell R1 | ectopic rohs.sev1 rosev.PI rosev.PII photoreceptor cell R2 | ectopic rohs.sev1 rosev.PI rosev.PII photoreceptor cell R2 | precursor ro1 photoreceptor cell R3 | ectopic rohs.sev1 rosev.PI rosev.PII photoreceptor cell R3 | ectopic | precursor ro1 photoreceptor cell R4 | ectopic rohs.sev1 rosev.PI rosev.PII photoreceptor cell R4 | ectopic | precursor ro1 photoreceptor cell R5 | ectopic rohs.sev1 rosev.PI rosev.PII photoreceptor cell R5 | precursor ro1 photoreceptor cell R6 | ectopic rohs.sev1 rosev.PI rosev.PII photoreceptor cell R7 rohs.sev1 rosev.PI rosev.PII photoreceptor cell R7 | cell autonomous | somatic clone rohs.sev1 photoreceptor cell R8 | ectopic rox63 photoreceptor cell R8 | supernumerary rox63 primary pigment cell rosev.PI rosev.PII retina rohs.PI rohs.PII
Classical Alleles ( 43 )
For All Classical Alleles Show
Allele of ro Class Mutagen Stocks Known lesion ro1 spontaneous 80 Yes ro64c X ray 2 -- rox63 loss of function allele, amorphic allele - genetic evidence X ray 1 Yes roMI00694 1 -- ro237A amorphic allele - genetic evidence ethyl methanesulfonate 0 Yes ro237B amorphic allele - genetic evidence ethyl methanesulfonate 0 Yes ro119 ethyl methanesulfonate 0 -- ro122 ethyl methanesulfonate 0 -- ro184a ethyl methanesulfonate 0 -- ro184b ethyl methanesulfonate 0 -- ro201 ethyl methanesulfonate 0 Yes ro252 ethyl methanesulfonate 0 Yes ro2 X ray 0 -- ro3 X ray 0 -- ro4 X ray 0 -- ro97 ethyl methanesulfonate 0 -- roC2.3 Delta2-3 0 Yes roCC1.2 Delta2-3 0 Yes roDOM gain of function allele X ray 0 Yes roE19K loss of function allele ethyl methanesulfonate 0 Yes roF49I loss of function allele ethyl methanesulfonate 0 Yes roK81-2 Delta2-3 0 Yes roK81-3 Delta2-3 0 Yes roK81-4 Delta2-3 0 Yes roK81-5 Delta2-3 0 Yes roP88S ethyl methanesulfonate 0 Yes roQ50K loss of function allele ethyl methanesulfonate 0 Yes roR52C ethyl methanesulfonate 0 Yes roR52L ethyl methanesulfonate 0 Yes roR53K loss of function allele ethyl methanesulfonate 0 Yes rospl1 ethyl methanesulfonate 0 Yes rospl2 ethyl methanesulfonate 0 Yes rounspecified 0 -- rov1 X ray 0 -- roV2.1 Delta2-3 0 Yes rov2 X ray 0 -- row ethyl methanesulfonate 0 Yes roX13 ethyl methanesulfonate 0 -- roX3.1 Delta2-3 0 Yes rox4 0 Yes roY25N loss of function allele ethyl methanesulfonate 0 Yes roπ13 P-element activity PM hybrid dysgenesis 0 Yes roπ13rv1 spontaneous 0 Yes
Alleles Carried on Transgenic Constructs ( 28 )
For All Alleles Carried on Transgenic Constructs Show
Allele of ro Class Mutagen Stocks Known lesion roGD1520 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes roJF03086 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes rosev.PI in vitro construct - regulatory fusion 1 Yes ro+t5.8 in vitro construct - genomic fragment 0 Yes ro+t6.8 in vitro construct - genomic fragment 0 Yes ro+t8.6 in vitro construct - genomic fragment 0 Yes ro+tC4 in vitro construct - genomic fragment 0 Yes ro+tC5 in vitro construct 0 Yes ro+tC6 in vitro construct 0 Yes ro+tHa in vitro construct - genomic fragment 0 Yes roC10.T:Ecol\lacZ in vitro construct - coding region fusion 0 Yes roC11.T:Ecol\lacZ in vitro construct 0 Yes roC12.T:Ecol\lacZ in vitro construct 0 Yes roC2 in vitro construct - genomic fragment 0 Yes roC3 in vitro construct - genomic fragment 0 Yes roC7.T:Ecol\lacZ in vitro construct - coding region fusion 0 Yes roC8.T:Ecol\lacZ in vitro construct - coding region fusion 0 Yes roC9.T:Ecol\lacZ in vitro construct - coding region fusion 0 Yes roH3 in vitro construct - site directed mutagenesis in vitro construct - amino acid replacement 0 Yes rohs.2sev in vitro construct - regulatory fusion 0 Yes rohs.PB in vitro construct - regulatory fusion in vitro construct - minigene 0 Yes rohs.PI in vitro construct - regulatory fusion 0 Yes rohs.PII in vitro construct - regulatory fusion 0 Yes rohs.sev1 in vitro construct - regulatory fusion 0 Yes rohs.sev2 in vitro construct - regulatory fusion 0 Yes roScer\UAS.cFa in vitro construct - regulatory fusion 0 Yes rosev.PII in vitro construct - regulatory fusion 0 Yes rot1.781 in vitro construct - genomic fragment 0 Yes
Aneuploid Aberrations
Duplicated in	Dp(3;1)Dr-RXT11 (Jurgens and Weigel, 1988) Dp(3;1)H135
Not duplicated in	Dp(3;1)R87   Ts(YSt;3Rt)B226 (Jurgens and Weigel, 1988) Ts(YSt;3Rt)J116 (Jurgens and Weigel, 1988)
Disrupted in	Df(3R)CC1.2 (Strutt and White, 1994) Df(3R)M1.1 (Strutt and White, 1994) Df(3R)ms(3)K81-2 (Yasuda et al., 1995) Df(3R)ms(3)K81-3 (Yasuda et al., 1995) Df(3R)ms(3)K81-4 (Yasuda et al., 1995) Df(3R)ms(3)K81-5 (Yasuda et al., 1995) Df(3R)ro80b (Cook and Carpenter, 2002, Anderson et al., 1985) Df(3R)rox4 (Yasuda et al., 1995) Df(3R)ro-XB3 (Anderson et al., 1985, Lockett et al., 1992, Strutt and White, 1994, Yasuda et al., 1995) Df(3R)T2.1 (Strutt and White, 1994) Df(3R)Tl-I (Cook and Carpenter, 2002) Df(3R)Tl-P (Cook and Carpenter, 2002, Jurgens and Weigel, 1988) Df(3R)V2.1 (Strutt and White, 1994) Df(3R)X3.1 (Strutt and White, 1994) T(2;3)roDOM (Chanut et al., 2000)
Not disrupted in	Df(3R)Espl3 (Cook and Carpenter, 2002) Df(3R)ME61 (Cook and Carpenter, 2002) Df(3R)Tl-X (Cook and Carpenter, 2002)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD1520} NA P{TRiP.JF03086} NA P{UAS-ro.F} NA reporter construct P{ro-lacZ.C7} No P{ro-lacZ.C8} No P{ro-lacZ.C9} No P{ro-lacZ.C10} No P{ro-lacZ.C11} No P{ro-lacZ.C12} No heat-shock construct P{2xsev-hs-ro} NA P{hsp-rough} NA P{hs-ro.I} NA P{hs-ro.II} NA P{sev-hsp-ro} NA P{W8sev-hsp-ro} NA characterization construct P{hs-ro/Antp-0} NA P{ms(3)K81+t1.781} NA P{ro-8.6} NA P{ro/Antp-0} NA P{ro/Antp-1} NA P{ro/Antp-2} NA P{ro/Antp-3} NA P{ro/Antp-4} NA P{ro/Antp-5} NA P{ro.C2} NA P{ro.C3} NA P{ro.lacZ-tau.G} NA P{ro[Dfd]} NA P{ro[H3Dfd]} NA P{ro[HTHDfd]} NA P{ro+} NA P{ro+C1} NA P{ro+C4} NA P{ro+C5} NA P{ro+C6} NA P{ro-Ubp2.T:Hsap\MYC} NA P{ro-Ubp3.T:Hsap\MYC} NA P{ro-Ubp4.T:Hsap\MYC} NA P{sevroI} NA P{sevroII} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions 412{}ro1 NA Mi{MIC}roMI00694 NA P{}roπ13 NA
Gene Ontology: Function, Process & Cellular Component ( 11 unique terms )
Terms Based on Experimental Evidence ( 4 terms )
Molecular Function
CV term Evidence References
RNA polymerase II regulatory region DNA binding inferred from direct assay (Heberlein et al., 1994)
Biological Process
CV term Evidence References
positive regulation of transcription from RNA polymerase II promoter inferred from mutant phenotype (Heberlein et al., 1994) R2/R5 cell differentiation inferred from mutant phenotype (Heberlein et al., 1994)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (Heberlein et al., 1994)
Terms Based on Predictions or Assertions ( 9 terms )
Molecular Function
CV term Evidence References
sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001356, InterPro:IPR017970 (FlyBase Curators et al., 2004-) sequence-specific DNA binding transcription factor activity inferred from sequence or structural similarity with InterPro:IPR001356 (FlyBase, 1992-)
Biological Process
CV term Evidence References
compound eye development non-traceable author statement (Swiss-Prot Project Members, 1989.3.1) negative regulation of R8 cell differentiation non-traceable author statement (Frankfort and Mardon, 2002) R2/R5 cell differentiation non-traceable author statement (Frankfort and Mardon, 2003) R8 cell fate commitment non-traceable author statement (Frankfort and Mardon, 2002) R8 cell fate specification traceable author statement (Kumar and Moses, 2000) regulation of transcription, DNA-dependent inferred from sequence or structural similarity with InterPro:IPR001356 (FlyBase, 1992-)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with InterPro:IPR001356 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1989.3.1)
Sequence Ontology: Class of Gene
	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 ro allele Gene References ro1 ato (White and Jarman, 2000) roDOM amos (Heberlein et al., 1993, Chanut et al., 2002) ato (Chanut et al., 2000) Dl (Chanut et al., 2000) E(roDOM)50 (Chanut et al., 2000) E(roDOM)1065 (Chanut et al., 2000) E(roDOM)1777 (Chanut et al., 2000) E(roDOM)1801 (Chanut et al., 2000) E(roDOM)2051 (Chanut et al., 2000) E(roDOM)2409 (Chanut et al., 2000) E(roDOM)3222 (Chanut et al., 2000) gl (Chanut et al., 2000) gro (Chanut et al., 2000) H (Chanut et al., 2000) hh (Chanut et al., 2000) osa (Treisman et al., 1997, Chanut et al., 2000) ptc (Chanut et al., 2000) Su(roDOM)345 (Chanut et al., 2000) Su(roDOM)519 (Chanut et al., 2000) Su(roDOM)923 (Chanut et al., 2000) Su(roDOM)1480 (Chanut et al., 2000) Su(roDOM)1993 (Chanut et al., 2000) Su(roDOM)2014 (Chanut et al., 2000) Su(roDOM)3023 (Chanut et al., 2000) wg (Treisman et al., 1997) rohs.PI amos (Heberlein et al., 1993) rox63 sens (Frankfort et al., 2001) svp (Heberlein et al., 1991)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 68125 DroID - A comprehensive database of gene and protein interactions. • FBgn0003267 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 43234
Orthologs
Genome-wide drosophilid orthologs	Dana\GF18562 Dere\GG12166 Dgri\GH23656 Dmoj\GI24523 Dper\GL27262 Dpse\GA19529 Dsec\GM10159 Dsim\GD18113 Dvir\ro Dwil\GK13741 Dyak\GE10608
Curated drosophilid orthologs	Dhyd\roII (Spencer, 1949) Dmau\ro (Moehring et al., 2004) Dpse\GA19529   Drep\ro (Ranz et al., 2001, Ranz et al., 2001) Dvir\ro
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AGAP002372-PA Anopheles gambiae (mosquito) 85048 Branchiostoma floridae (lancelet) 88105 Branchiostoma floridae (lancelet) ENSORLP00000021937 Oryzias latipes (japanese killifish) 820741 Populus trichocarpa (black cottonwood) 822005 Populus trichocarpa (black cottonwood) NP_001034511.1 Tribolium castaneum (red flour beetle) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB17035 NV22733 LH16169 ISCW008247 FBgn0228462 FBgn0215749 FBgn0013136 FBgn0189655 FBgn0165110 JGI_V11_47751 FBgn0079525 FBgn0164843 FBgn0147245 FBgn0131113 FBgn0104458 FBgn0095580 CPIJ001611 ACYPI56397 GB20009 AGAP002372 AAEL015355 AAEL010463 PHUM050850 TC030042-GA TC030553
Stocks & Reagents
Stocks Listed in FlyBase ( 87 )
Bloomington	569 ro1 6201 ro64c 5770 P{sevroI}1; ry506 4064 ant1/CyO; ro1 496 e4 wo1 ro1 28671 y1 v1; P{TRiP.JF03086}attP2 1713 ss1 e4 ro1/TM3, Sb1 6335 w*; P{neoFRT}82B rox63/TM6B, Tb1
Kyoto	105984 ro1 107569 ant1/CyO; ro1 105998 se1 ss1 k1 es ro1
VDRC	v11792 w1118; P{GD1520}v11792/TM3
	More stocks available...
Genomic Clones ( 1 )
	BACR24O14 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 3 )
	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	IP01518
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones	146269 EK248711
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0003267 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 43234
Antibody Information
	monoclonal (Kimmel et al., 1990) polyclonal (Kimmel et al., 1990)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	roDOM affects morphogenetic furrow progression by interfering with hh signalling and preventing implementation of furrow-specific cell fates. (Chanut et al., 2000) ro expression in and around the morphogenetic furrow of the developing eye is regulated by hh. (Dominguez, 1999) Spred is positively regulated by ro and gl. (DeMille et al., 1996) ro is a retina-specific negative regulator required for proper resolution of ato expression and proneural migration. ro acts in conjunction with the more ubiquitously used N regulatory pathway. (Dokucu et al., 1996) The R8 fate in the developing eye is likely to be decided by the balance of the transcription factors encoded by ato and ro. The ato and ro products act as positive and negative factors, respectively, of such R8-specific genes as boss. (Dokucu et al., 1995) Alleles of S and of ro have been identified in a screen for abnormal numbers of R8 cells. (Spencer et al., 1995) A 5.8kb genomic fragment contains all the information required for normal ro expression and function. Important cis-regulatory sequences are located both in the 5' promoter region (between -940 and -340, coordinates from FBrf0047664) and a tissue-specific enhancer is located in the first intron. Amino acids located in the C-terminal region of the homeodomain play an important role in binding site recognition. (Heberlein et al., 1994) Mutagenesis of the ro locus demonstrates the ro gene product is required for the correct patterning of the developing eye. (Knibb et al., 1993) ro and gl gene products are required for B and B-H2 gene expression in R1 and R6. (Higashijima et al., 1992) ro function is required during the early steps of ommatidial assembly. No R2 or R5 cells are present in ro- ommatidia as all existing out photoreceptors require svp+ function for their development. (Heberlein et al., 1991) Mutations in ro affect early ommatidia development. (van Vactor et al., 1991) Expression of ro in the presumptive R7 cell transforms the cell into an R1-6 type photoreceptor. The transformation is cell autonomous and depends on the presence of the sev gene. In wild type, ro may function autonomously in the specification of R2/5 photoreceptor identity but by itself may not initiate neural development. (Basler et al., 1990) Adult eyes are rough with irregular facet size and shape. Ommatidia irregular size and shape. The abnormal ro phenotype is due to a developmental defect: pattern formation defect. (Renfranz and Benzer, 1989) Analysis of somatic mosaics suggests that the or gene function is required only in photoreceptors R2 and R5. (Tomlinson et al., 1988)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079797 NM_170294 RefSeq (Proteins) • NP_524521 NP_733173 DDBJ / EMBL / GenBank • AAA56800 AAF56635 AAN14093 CAC32035 M23629 X12528 Entrez Gene - A searchable database of RefSeq genes. • 43234 UniProtKB/Swiss-Prot • P10181
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Homeobox, conserved site (IPR017970) Homeobox (IPR001356) Homeodomain-like (IPR009057) Homeodomain-related (IPR012287) Homeobox, eukaryotic (IPR020479)
Linkouts
	BioGRID - A database of protein and genetic interactions • 68125 DroID - A comprehensive database of gene and protein interactions. • FBgn0003267 DRSC - Results from RNAi screens. • FBgn0003267 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003267 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG6348-RB FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0003267 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 43234 InParanoid A subset of ortholog calls from InParanoid. • AGAP002372-PA Anopheles gambiae (mosquito) 85048 Branchiostoma floridae (lancelet) 88105 Branchiostoma floridae (lancelet) ENSORLP00000021937 Oryzias latipes (japanese killifish) 820741 Populus trichocarpa (black cottonwood) 822005 Populus trichocarpa (black cottonwood) NP_001034511.1 Tribolium castaneum (red flour beetle) Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /neural/rough.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 43234 modMine - Data generated by the modENCODE project. • FBgn0003267 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB17035 NV22733 LH16169 ISCW008247 FBgn0228462 FBgn0215749 FBgn0013136 FBgn0189655 FBgn0165110 JGI_V11_47751 FBgn0079525 FBgn0164843 FBgn0147245 FBgn0131113 FBgn0104458 FBgn0095580 CPIJ001611 ACYPI56397 GB20009 AGAP002372 AAEL015355 AAEL010463 PHUM050850 TC030042-GA TC030553
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG6348 (Perkins et al., 2009) DROROUGH (Kennington et al., 2006) Ro (McNeill et al., 2008, Almudi et al., 2009, O'Keefe et al., 2009, Aerts et al., 2010, Fan et al., 2010) ro (Pepple et al., 2007, Frankfort and Mardon, 2004, Hoskins et al., 2005, Iwanami et al., 2005, Mehta, 2005, Vrailas and Moses, 2006, Pepple et al., 2008, Lim et al., 2007, Lee et al., 2009, Baig et al., 2010)
Name Synonym	Rough (McNeill et al., 2008, Jafar-Nejad and Bellen, 2004, Voas and Rebay, 2004, Almudi et al., 2009, Vrailas and Moses, 2006, O'Keefe et al., 2009, Duong et al., 2008, Kaminker et al., 2002, Aerts et al., 2010, Fan et al., 2010) rough (Jones et al., 2006, Pepple et al., 2007, Vrailas and Moses, 2006, Pepple et al., 2008, Lim et al., 2007, Lee et al., 2009, Aoyagi and Wassarman, 2001, Baig et al., 2010)
Secondary FlyBase IDs
References ( 185 )
Generate a list of	All references relating to this gene ( 185 )
List References by type	Research paper  ( 118 ) Supplementary material  ( 6 ) Review  ( 30 ) Personal communication to FlyBase  ( 4 ) Abstract  ( 20 ) FlyBase analysis  ( 1 ) Protein sequence record  ( 1 ) Book  ( 1 ) Automatic genome annotation  ( 1 ) Curated genome annotation  ( 1 ) Letter  ( 1 )
Recent research papers ( 4 )
	Xie et al., 2011, Genetics 188(4): 823--834 Inhibition of RNA interference and modulation of transposable element expression by cell death in Drosophila. [FBrf0214636] Aerts et al., 2010, PLoS Biol. 8(7): e1000435 Robust Target Gene Discovery through Transcriptome Perturbations and Genome-Wide Enhancer Predictions in Drosophila Uncovers a Regulatory Basis for Sensory Specification. [FBrf0211419] Baig et al., 2010, Genetics 184(3): 731--744 The chromatin-remodeling protein Osa interacts with CyclinE in Drosophila eye imaginal discs. [FBrf0210399] Fan et al., 2010, Cell Death Differ. 17(6): 912--921 Dual roles of Drosophila p53 in cell death and cell differentiation. [FBrf0210741] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...