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Gene Dmel\roX1

General Information
Symbol	Dmel\roX1	Species	D. melanogaster
Name	RNA on the X 1	Annotation symbol	CR32777
Feature type	non_protein_coding_gene	FlyBase ID	FBgn0019661
Gene Model Status	Current	Stock availability	6 publicly available
Also Known As	roX
Genomic Location
Chromosome (arm)	X	Recombination map	1-
Cytogenetic map	3F3-3F3	Sequence location	X:3,752,929..3,756,720 [-]
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 RNA on the X 1 is referred to in FlyBase by the symbol Dmel\roX1 (CR32777, FBgn0019661). It is a non_protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. It is reported to be involved in the biological process: dosage compensation complex assembly involved in dosage compensation by hyperactivation of X chromosome; dosage compensation, by hyperactivation of X chromosome; dosage compensation. 59 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of very low expression. Peak expression observed within 00-18 hour embryonic stages, during late larval stages, at stages throughout the pupal period, in adult male stages. Summary of FlyAtlas Anatomical Expression Data: No FlyAtlas data available because no Affy2 ProbeSet aligns to an exon of roX1. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of roX1. Gene sequence location is X:3752929..3756720.
External Summaries
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.
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FB2012_01	Sequence features BKN40364 References Park et al., 2010, Biochem. Biophys. Res. Commun. 399(2): 227--231 Schiemann et al., 2010, Biochem. Biophys. Res. Commun. 402(4): 699--704 Gallach et al., 2010, BMC Genomics 11: 169
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 3F3-3F3   Limits computationally determined from genome sequence between P{EP}EP1200EP1200&P{EP}EP1343 and P{EP}CG2930EP1352
Experimentally Determined Cytological Location
Cytogenetic map Notes References 3F-3F     (Meller, 1997.4.10) 3F-3F     (Amrein, 1997.1.21) 3F-3F   (determined by in situ hybridisation)   (Amrein and Axel, 1997) 3F-3F     (Meller et al., 1996)
Experimentally Determined Recombination Data
Location	1- (Meller et al., 1996)
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\roX1 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)   roX1-RA FBtr0070634  NR_002098   3748   roX1-RB FBtr0070635  NR_002097   3460
Additional Transcript Data & Comments
Reported size (kB)	3.8, 3.6 (northern blot) (Meller et al., 1997) 3.7 (northern blot) (Amrein and Axel, 1997)
Comments
External Data
Crossreferences
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence   Name AA201881   AA441003   AA567665   AB051842   AI108090   AI108165   AI113920   AI134676   AI402206   AI404333   AY118766 AAM50626   BI161714   BI161715   BI161871   BI164908   BI165100   BI165937   BI165967   BI167243   BI168357   BI170485   BI170991   BI171655   BI171982   BI173723   BI213354   BI213582   BI214458   BI215127   BI229351   BI229359   BI232414   BI232428   BI232734   BI232900   BI236338   BI242568   BI355995   BI357246   BI357716   BI358265   BI358520   BI362839   BI363989   BI364372   BI364583   BI364881   BI365543   BI365958   BI366531   BI366982   BI367170   BI369398   BI370877   BI371248   BI371902   BI373314   BI374314   BI374555   BI485996   BI565037   BI577618   BI590849   BI592164   BI593300   BI604581   BI606953   BI610767   BI610778   BI611047   BI612154   BI612169   BI612415   BI615082   BI615277   BI615748   BI615893   BI618379   BI618902   BI619401   BI629059   BI629650   BP547146   BP553288   BQ103161   CA806772   CK657332   CO152701   CO153327   CO153401   CO154200   CO154259   CO154725   CO154821   CO155009   CO155498   CO155617   CO155883   CO156110   CO179444   CO187645   CO188850   CO191698   CO192181   CO263463   CO266969   CO267011   CO267152   CO269375   CO270280   CO281910   CO282115   CO284009   CO284053   CO285314   CO285542   CO285898   CO287216   CO287759   CO290558   CO291984   CO292940   CO293862   CO294429   CO298442   CO298650   CO298831   CO301444   CO303719   CO304243   CO305329   CO305543   CO309135   CO309393   CO310948   CO311831   CO313973   CO315728   CO317636   CO318126   CO321162   CO322454   CO322526   CO324014   CO324449   CO325406   CO327379   CO327636   CO327868   CO328353   CO333317   CO334120   CO335321   CO335387   CO336234   CO336640   CO336801   CO336809   CO337759   CO337762   CO338259   CO338838   CO339015   CO339820   CO340101   CZ470481   CZ490195   CZ490196   DN154195   EC058452   EC061447   EC063271   EC064906   EC066668   EC066744   EC066758   EC068266   EC070877   EC074554   EC075413   EC075790   EC076119   EC076709   EC078496   EC079795   EC079915   EC081646   EC084460   EC084980   EC085263   EC085970   EC089891   EC090836   EC194531   EC194716   EC195731   EC198978   EC199976   EC200899   EC201241   EC202416   EC202576   EC203854   EC206003   EC207835   EC211004   EC211606   EC212161   EC212687   EC213627   EC213628   EC213942   EC214249   EC214740   EC217158   EC219461   EC220205   EC221207   EC222570   EC223070   EC223349   EC223729   EC226768   EC229557   EC230428   EC231675   EC233270   EC234307   EC234509   EC235366   EC235528   EC240166   EC241807   EC243964   EC244331   EC244977   EC246955   EC247079   EC247791   EC250925   EC252905   EC253260   EC255304   EC255770   EC255800   EC258046   EC260848   EC261289   EC261487   EC261544   EC261587   EC261689   EC261882   EC261943   EC262613   EC262931   EC263477   EC263750   EC263808   EC263895   EC263954   EC264446   EC264969   EC265337   EC265727   EC265982   EC266158   EC266895   EC266970   EC267854   EL887193   EL887250   FF579082   FF579222   FF579293   FF579538   U85980
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 FBsf0000159920 X:3,756,005..3,756,013 bound_moiety=Sxl-XP evidence=predicted (Meller et al., 1997) protein binding site FBsf0000159921 X:3,755,989..3,755,997 bound_moiety=Sxl-XP evidence=predicted (Meller et al., 1997)
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
No Assay Recorded Stage Tissue/Position (including subcellular localization) Reference adult stage | male     (Meller et al., 1997) in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage | male   cell   • X chromosome (Franke and Baker, 1999) Comment:expression is male-specific cell   • nucleus | punctate (Franke and Baker, 1999) Comment:expression is male-specific embryonic stage 4 -- 5   organism   • nucleus | basal (Lecuyer et al., 2007) embryonic stage 5 -- 13   embryonic brain   (Meller et al., 1997) Comment:female embryo ventral nerve cord   (Meller et al., 1997) Comment:female embryo embryonic stage 5 -- 17   ventral nerve cord   (Meller et al., 1997) Comment:male embryo embryonic brain   (Meller et al., 1997) Comment:male embryo third instar larval stage   embryonic/larval salivary gland   (Meller et al., 1997) gastric caecum   (Meller et al., 1997) ring gland   (Meller et al., 1997) embryonic/larval garland cell   (Meller et al., 1997) adult stage | male   pupal/adult digestive system   (Amrein and Axel, 1997, Meller et al., 1997) ejaculatory bulb   (Meller et al., 1997) cell body of adult brain   (Amrein and Axel, 1997) adult brain   (Meller et al., 1997) interneuron of antennal lobe   (Amrein and Axel, 1997) photoreceptor cell   (Amrein and Axel, 1997) thoracico-abdominal ganglion   (Amrein and Axel, 1997, Meller et al., 1997) optic lobe neuron   (Amrein and Axel, 1997) neuron of third segment of antenna   (Amrein and Axel, 1997) adult fat body   (Meller et al., 1997) cell body of mushroom body   (Amrein and Axel, 1997) spermatogenesis & adult stage   male reproductive system   (Meller et al., 1997) northern blot Stage Tissue/Position (including subcellular localization) Reference adult stage | male   organism   (Bai et al., 2004)
Additional Descriptive Data
	roX1 transcript is detected in the nuclei of all body parts, and is associated with the X chromosome. In embryos, roX1 transcript colocalizes exactly with msl-1 protein. (Franke and Baker, 1999) In adult males, roX1 transcripts are expressed in the cell bodies of the central brain and mushroom bodies, the neurons of the optic lobe, and the interneurons of the antennal lobes. They are also expressed in peripheral neurons including the photoreceptor cells and the olfactory neurons of the third antennal segment. Strong expression is observed in the thoracic ganglia and weak expression is seen in the gut. Expression appears to be confined to the nucleus. No expression is observed in females. (Amrein and Axel, 1997) In cryosections of adults, roX1 transcription is strongest in the central nervous system of the male brain. Most cells of the brain and thoracic ganglia stain strongly. Weaker expression is observed in the gut, parts of the reproductive tract (especially the ejaculatory bulb), and in fat cells. In embryos, roX1 transcripts are expressed in both sexes starting at about 2.5 hours after egg laying. Expression is strong in cells of the CNS until ~stage 13 at which point the expression in females subsides. The staining disappears first from the ventral nerve cord and then from the brain. In male larvae, strong staining is seen in many tissues, including the large polyploid cells of the gastric caecae, the ring gland and the nephrocytes, and the salivary glands. This staining is nuclear and localizes to the X chromosome. roX1 expression is controlled by the dosage compensation pathway and not by tra. (Meller et al., 1997)
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 FBgn0019661    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0019661 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 high expression to a trough of very low expression. Peak expression observed within 00-18 hour embryonic stages, during late larval stages, 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 FBgn0019661 expression level Developmental Stage   Expression Level embryo 00-02hr    301 embryo 02-04hr    5260 embryo 04-06hr    9873 embryo 06-08hr    9389 embryo 08-10hr    9050 embryo 10-12hr    4340 embryo 12-14hr    6398 embryo 14-16hr    1595 embryo 16-18hr    3130 embryo 18-20hr    2504 embryo 20-22hr    2528 embryo 22-24hr    3907 larva L1    1727 larva L2    1872 larva L3 12hr old    1416 larva L3 puffstage 1-2    1678 larva L3 puffstage 3-6    3650 larva L3 puffstage 7-9    5159 white prepupae new    4545 white prepupae 12hr    3576 white prepupae 24hr    5755 pupae 2d postWPP    4206 pupae 3d postWPP    2635 pupae 4d postWPP    932 adult male 01day    4423 adult male 05day    4870 adult male 30day    2728 adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (301) embryo 02-04hr  (5260) embryo 04-06hr  (9873) embryo 06-08hr  (9389) embryo 08-10hr  (9050) embryo 10-12hr  (4340) embryo 12-14hr  (6398) embryo 14-16hr  (1595) embryo 16-18hr  (3130) embryo 18-20hr  (2504) embryo 20-22hr  (2528) embryo 22-24hr  (3907) larva L1  (1727) larva L2  (1872) larva L3 12hr old  (1416) larva L3 puffstage 1-2  (1678) larva L3 puffstage 3-6  (3650) larva L3 puffstage 7-9  (5159) white prepupae new  (4545) white prepupae 12hr  (3576) white prepupae 24hr  (5755) pupae 2d postWPP  (4206) pupae 3d postWPP  (2635) pupae 4d postWPP  (932) adult male 01day  (4423) adult male 05day  (4870) adult male 30day  (2728) adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    301 embryo 02-04hr  (5260) embryo 04-06hr  (9873) embryo 06-08hr  (9389) embryo 08-10hr  (9050) embryo 10-12hr  (4340) embryo 12-14hr  (6398) embryo 14-16hr  (1595) embryo 16-18hr  (3130) embryo 18-20hr  (2504) embryo 20-22hr  (2528) embryo 22-24hr  (3907) larva L1  (1727) larva L2  (1872) larva L3 12hr old  1416 larva L3 puffstage 1-2  (1678) larva L3 puffstage 3-6  (3650) larva L3 puffstage 7-9  (5159) white prepupae new  (4545) white prepupae 12hr  (3576) white prepupae 24hr  (5755) pupae 2d postWPP  (4206) pupae 3d postWPP  (2635) pupae 4d postWPP    932 adult male 01day  (4423) adult male 05day  (4870) adult male 30day  (2728) adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    301 embryo 02-04hr    5260 embryo 04-06hr    9873 embryo 06-08hr    9389 embryo 08-10hr    9050 embryo 10-12hr    4340 embryo 12-14hr    6398 embryo 14-16hr    1595 embryo 16-18hr    3130 embryo 18-20hr    2504 embryo 20-22hr    2528 embryo 22-24hr    3907 larva L1    1727 larva L2    1872 larva L3 12hr old    1416 larva L3 puffstage 1-2    1678 larva L3 puffstage 3-6    3650 larva L3 puffstage 7-9    5159 white prepupae new    4545 white prepupae 12hr    3576 white prepupae 24hr    5755 pupae 2d postWPP    4206 pupae 3d postWPP    2635 pupae 4d postWPP    932 adult male 01day    4423 adult male 05day    4870 adult male 30day    2728 adult female 01day    28 adult female 05day    24 adult female 30day    26 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    301 embryo 02-04hr    5260 embryo 04-06hr    9873 embryo 06-08hr    9389 embryo 08-10hr    9050 embryo 10-12hr    4340 embryo 12-14hr    6398 embryo 14-16hr    1595 embryo 16-18hr    3130 embryo 18-20hr    2504 embryo 20-22hr    2528 embryo 22-24hr    3907 larva L1    1727 larva L2    1872 larva L3 12hr old    1416 larva L3 puffstage 1-2    1678 larva L3 puffstage 3-6    3650 larva L3 puffstage 7-9    5159 white prepupae new    4545 white prepupae 12hr    3576 white prepupae 24hr    5755 pupae 2d postWPP    4206 pupae 3d postWPP    2635 pupae 4d postWPP    932 adult male 01day    4423 adult male 05day    4870 adult male 30day    2728 adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0019661 expression level Developmental Stage   Expression Level embryo 00-02hr    301 embryo 02-04hr    5260 embryo 04-06hr    9873 embryo 06-08hr    9389 embryo 08-10hr    9050 embryo 10-12hr    4340 embryo 12-14hr    6398 embryo 14-16hr    1595 embryo 16-18hr    3130 embryo 18-20hr    2504 embryo 20-22hr    2528 embryo 22-24hr    3907 larva L1    1727 larva L2    1872 larva L3 12hr old    1416 larva L3 puffstage 1-2    1678 larva L3 puffstage 3-6    3650 larva L3 puffstage 7-9    5159 white prepupae new    4545 white prepupae 12hr    3576 white prepupae 24hr    5755 pupae 2d postWPP    4206 pupae 3d postWPP    2635 pupae 4d postWPP    932 adult male 01day    4423 adult male 05day    4870 adult male 30day    2728 adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (301) embryo 02-04hr  (5260) embryo 04-06hr  (9873) embryo 06-08hr  (9389) embryo 08-10hr  (9050) embryo 10-12hr  (4340) embryo 12-14hr  (6398) embryo 14-16hr  (1595) embryo 16-18hr  (3130) embryo 18-20hr  (2504) embryo 20-22hr  (2528) embryo 22-24hr  (3907) larva L1  (1727) larva L2  (1872) larva L3 12hr old  (1416) larva L3 puffstage 1-2  (1678) larva L3 puffstage 3-6  (3650) larva L3 puffstage 7-9  (5159) white prepupae new  (4545) white prepupae 12hr  (3576) white prepupae 24hr  (5755) pupae 2d postWPP  (4206) pupae 3d postWPP  (2635) pupae 4d postWPP  (932) adult male 01day  (4423) adult male 05day  (4870) adult male 30day  (2728) adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    301 embryo 02-04hr  (5260) embryo 04-06hr  (9873) embryo 06-08hr  (9389) embryo 08-10hr  (9050) embryo 10-12hr  (4340) embryo 12-14hr  (6398) embryo 14-16hr  1595 embryo 16-18hr  (3130) embryo 18-20hr  (2504) embryo 20-22hr  (2528) embryo 22-24hr  (3907) larva L1  1727 larva L2  1872 larva L3 12hr old  1416 larva L3 puffstage 1-2  1678 larva L3 puffstage 3-6  (3650) larva L3 puffstage 7-9  (5159) white prepupae new  (4545) white prepupae 12hr  (3576) white prepupae 24hr  (5755) pupae 2d postWPP  (4206) pupae 3d postWPP  (2635) pupae 4d postWPP    932 adult male 01day  (4423) adult male 05day  (4870) adult male 30day  (2728) adult female 01day    28 adult female 05day    24 adult female 30day    26 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    301 embryo 02-04hr    5260 embryo 04-06hr    9873 embryo 06-08hr    9389 embryo 08-10hr    9050 embryo 10-12hr    4340 embryo 12-14hr    6398 embryo 14-16hr    1595 embryo 16-18hr    3130 embryo 18-20hr    2504 embryo 20-22hr    2528 embryo 22-24hr    3907 larva L1    1727 larva L2    1872 larva L3 12hr old    1416 larva L3 puffstage 1-2    1678 larva L3 puffstage 3-6    3650 larva L3 puffstage 7-9    5159 white prepupae new    4545 white prepupae 12hr    3576 white prepupae 24hr    5755 pupae 2d postWPP    4206 pupae 3d postWPP    2635 pupae 4d postWPP    932 adult male 01day    4423 adult male 05day    4870 adult male 30day    2728 adult female 01day    28 adult female 05day    24 adult female 30day    26 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    301 embryo 02-04hr    5260 embryo 04-06hr    9873 embryo 06-08hr    9389 embryo 08-10hr    9050 embryo 10-12hr    4340 embryo 12-14hr    6398 embryo 14-16hr    1595 embryo 16-18hr    3130 embryo 18-20hr    2504 embryo 20-22hr    2528 embryo 22-24hr    3907 larva L1    1727 larva L2    1872 larva L3 12hr old    1416 larva L3 puffstage 1-2    1678 larva L3 puffstage 3-6    3650 larva L3 puffstage 7-9    5159 white prepupae new    4545 white prepupae 12hr    3576 white prepupae 24hr    5755 pupae 2d postWPP    4206 pupae 3d postWPP    2635 pupae 4d postWPP    932 adult male 01day    4423 adult male 05day    4870 adult male 30day    2728 adult female 01day    28 adult female 05day    24 adult female 30day    26 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     modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
External Data & Images
Linkouts	FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for roX1 Stages(s) 4-6 Stages(s) 7-8 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal roX1MB710 viable roX1ex6 roX1ex7B roX1ex18A roX1ex33A roX1ex40A roX1ex58A roX1ex84A roX1MB710 roX1SMC17A Sterility Allele fertile roX1MB710 Phenotype manifest in Allele
Classical Alleles ( 17 )
For All Classical Alleles Show
Allele of roX1 Class Mutagen Stocks Known lesion roX1c06080 piggyBac transposase 1 -- roX1f07388 piggyBac transposase 1 -- roX1G958 P-element activity 1 -- roX133DE P-element activity 0 Yes roX151A P-element activity 0 Yes roX1ex18A P-element activity 0 Yes roX1ex33A P-element activity 0 Yes roX1ex40A P-element activity 0 Yes roX1ex58A P-element activity 0 Yes roX1ex6 P-element activity 0 Yes roX1ex7B P-element activity 0 Yes roX1ex84A P-element activity 0 Yes roX1GG01214 0 -- roX1MB710 P-element activity 0 Yes roX1SMC17A loss of function allele P-element activity 0 Yes roX1SMC40A 0 Yes roX1unspecified 0 --
Alleles Carried on Transgenic Constructs ( 42 )
For All Alleles Carried on Transgenic Constructs Show
Allele of roX1 Class Mutagen Stocks Known lesion roX1GL00172 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes roX1JF01191 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes roX1JF02818 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes roX13'S.Hsp83 in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes roX15'S.Hsp83 in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes roX1a.Hsp83 in vitro construct - regulatory fusion 0 Yes roX1ex7B.Hsp83 in vitro construct - deletion 0 Yes roX1GM.ΔDHS in vitro construct - deletion 0 Yes roX1Hsp83.3' in vitro construct - regulatory fusion 0 Yes roX1Hsp83.5' in vitro construct - regulatory fusion 0 Yes roX1Hsp83.PD in vitro construct - regulatory fusion 0 Yes roX1Hsp83.PM in vitro construct - regulatory fusion 0 Yes roX1L.Hsp83 in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes roX1m.c3 in vitro construct - minigene 0 Yes roX1Scer\UAS.cKa in vitro construct - regulatory fusion 0 Yes roX1SL.Hsp83 in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes roX1t4.9 in vitro construct - genomic fragment 0 Yes roX1Δ1.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ10.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ11.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ2.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ3.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ30.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ39 in vitro construct - regulatory fusion in vitro construct - minigene 0 Yes roX1Δ4.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ5.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ6.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ7.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ8.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1Δ9.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1ΔAB.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔIR.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1ΔIRB.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔO.Hsp83 in vitro construct - regulatory fusion in vitro construct - deletion 0 Yes roX1ΔRB1-3.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔRB1.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔRB123.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔRB2.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔRB3.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔReg1.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔSL1.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes roX1ΔSL2.Hsp83 site specific recombinase in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data heat-shock construct P{H83-roX1.ΔAB} NA P{H83-roX1.ΔIRB} NA P{H83-roX1.ΔReg1} NA P{H83-roX1.ΔSL1} NA P{H83-roX1.ΔSL2} NA P{Hsp83-3'-roX1} NA P{Hsp83-5'-roX1} NA P{Hsp83-roX1.3'S} NA P{Hsp83-roX1.5'S} NA P{Hsp83-roX1.AS} NA P{Hsp83-roX1.D} NA P{Hsp83-roX1.ex7B} NA P{Hsp83-roX1.L} NA P{Hsp83-roX1.SL} NA P{Hsp83-roX1.Δ1} NA P{Hsp83-roX1.Δ2} NA P{Hsp83-roX1.Δ3} NA P{Hsp83-roX1.Δ4} NA P{Hsp83-roX1.Δ5} NA P{Hsp83-roX1.Δ6} NA P{Hsp83-roX1.Δ7} NA P{Hsp83-roX1.Δ8} NA P{Hsp83-roX1.Δ9} NA P{Hsp83-roX1.Δ10} NA P{Hsp83-roX1.Δ11} NA P{Hsp83-roX1.Δ30} NA P{Hsp83-roX1.ΔIR} NA P{Hsp83-roX1.ΔO} NA P{Hsp83-roX1} NA UAS construct P{TRiP.GL00172} NA P{TRiP.JF01191} NA P{TRiP.JF02818} NA P{UAS-roX1.K} NA characterization construct P{GMroX1} NA P{H83-roX1-Dpse\roX1} NA P{Hsp83-roX1.Δ39} NA P{roX1.a} NA P{roX1.b} NA P{roX1.bc} NA P{roX1.c3.4} NA P{roX1.c3} NA P{roX1.c} NA P{roX1.L} NA P{roX1.R3'} NA P{roX1.R5'} NA P{roX1.R5'+100} NA P{roX1.S} NA P{roX1.SM} NA P{roX1.ΔDHS} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{H83-roX1.ΔRB1-3} NA P{H83-roX1.ΔRB1} NA P{H83-roX1.ΔRB2} NA P{H83-roX1.ΔRB3} NA P{H83-roX1.ΔRB123} NA P{roX1.c3.4}33DE NA P{roX1.c3.4}51A NA PBac{PB}roX1c06080 NA PBac{WH}roX1f07388 NA insertion of enhancer trap P{lArB}roX1MB710 No insertion of mobile activating element P{EP}roX1G958 NA P{Mae-UAS.6.11}roX1GG01214 NA
Gene Ontology: Function, Process & Cellular Component ( 5 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 5 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
dosage compensation traceable author statement (Akhtar, 2003) dosage compensation, by hyperactivation of X chromosome non-traceable author statement (FlyBase, 1992-) traceable author statement (Wutz, 2003) dosage compensation complex assembly involved in dosage compensation by hyperactivation of X chromosome non-traceable author statement (Wutz, 2003)
Cellular Component
CV term Evidence References
X chromosome non-traceable author statement (Wutz, 2003) traceable author statement (Amrein, 2000) X chromosome located dosage compensation complex, transcription activating non-traceable author statement (FlyBase, 1992-) traceable author statement (Amrein, 2000, Akhtar, 2003)
Sequence Ontology: Class of Gene
	non_protein_coding_gene   nuclear_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 roX1 allele Gene References roX1ex6 roX2 (Meller and Rattner, 2002) unspecified E(bx) (Bai et al., 2007)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 533973 DroID - A comprehensive database of gene and protein interactions. • FBgn0019661 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 3772376
Orthologs
Genome-wide drosophilid orthologs
Curated drosophilid orthologs
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	33535 w* P{EP}roX1G958 27734 y1 v1; P{TRiP.JF02818}attP2 31602 y1 v1; P{TRiP.JF01191}attP2 35274 y1 sc* v1; P{TRiP.GL00172}attP2
Harvard	- PBac{PB}roX1c06080 - PBac{WH}roX1f07388
Genomic Clones ( 2 )
	BACR19D19 CH221-14P20 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 265 )
	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	GH10432
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GH06827 GH06927 GH12206 GH23989 HL01606 LD03972 LD15734 LP23537 RE01351 RE04677 RE04915 RE05938 RE05972 RE07579 RE09069 RE11949 RE12633 RE13475 RE13891 RE16812 RE18738 RE19010 RE20271 RE21346 RE27117 RE27126 RE28476 RE28490 RE28855 RE29057 RE32379 RE37071 RE39945 RE43667 RE44264 RE44981 RE45303 RE47513 RE48992 RE49465 RE49739 RE50073 RE50892 RE51365 RE52087 RE52640 RE52877 RE55568 RE57646 RE58105 RE58927 RE60573 RE61870 RE62179 RE69361 RE71328 RH04532 RH09791 RH11304 RH16531 RH16564 RH17140 RH40560 RH40575 RH40875 RH44610 RH44872 RH45485 RH45785 RH49104 RH49842 RH50432 RH57860 RH58551 RH62684 RH70002 RH73919
Other clones	12768 19536 29227 31109 33834 34340 35029 36831 44146 46163 46470 51478 52579 54260 55448 56689 58514 60275 62269 62906 65257 66256 67054 67811 71018 71222 72650 73406 75144 76671 81982 83080 100219 102265 102818 103847 105749 106273 108150 118268 146123 157172 159271 164367 165934 166157 174933 175228.2 194926 214211.58 214281.50 214349.54 214437.61 214541.43 214541.44 283428 295794 473525 522293 523246 523371 524054 524159 524920 525054 525671 527152 533826 534000 557133 561860 561870 568867 569022 569607 569611 571206 572781 572898 576487 Arica_10_E10 Cauquenes_24_C02 CK01.1B.E10 CK01.3B.H4 CK01.7D.C5 CK01.13D.A12 CK01.18A.E8 CK01.36B.C8 CK01.64D.A2 CK01.76A.E5 CK01.78C.F9 CK01.78C.G1 CK01.90D.F6 CK01.95C.E3 CK01.102B.F1 CK01.108D.E6 CK01.114B.A12 CK01.114C.F2 CK01.123D.C4 CK01.130D.H1 Diego_25_A07 EC31685 EC33307 EK031031 EK042208 EK059419 EK061125 EK065233 EK066706 EK074318 EK088605 EK094242 EK098151 EK148045 EK148338 EK148860 EK159062 EK159553 EK165023 EK165130 EK168736 EK169223 EK173022 EK173426 EK173939 EK180958 EK188157 EK188319 EK192250 EK193751 EK194941 EK196421 EK198930 EK201252 EK205010 EK206922 EK217509 EK223030 EK226923 EK234542 EK242621 EK244161 EK248230 EK248922 EK260411 EK262325 EK268650 EK270416 EK290425 EK306503 EK308940 EN00231 EN01741 EN01910 EN03710 EN03815 EN04657 EN04854 EN05204 EN06156 EN06431 EN06921 EN07350 EN10019 EN10234 EN12121 EN12938 EN13252 EN13264 EN15239 EN15242 EN16333 EN17739 EP00624 EP06858 EP07756 EP08158 EP09043 EP09450 EP10025 ESG014d.E21_H06 Fernando_27_H03 FGH113H08 FGM223F04 IP18335 RE01143 UUGC0559
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0019661 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 43963
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: roX1 BcDNA:GH10432 (FlyBase, 1996-)
Additional comments	Source for merge of roX1 BcDNA:GH10432 was a shared cDNA (date:030728). (FlyBase, 1996-)
Other Comments
	Transcription of the roX1 gene is directly regulated by the DNaseI hypersensitive site (DHS) within the roX1 transcription unit. This regulation requires the msl-1, msl-2, msl-3 and mle proteins but not roX (roX1 and roX2) RNAs. The DHS is not required for initiation of cis spreading of the MSL complex. (Bai et al., 2004) msl-2 protein controls male-specific transcription of roX1 and does not require any other MSL protein for this role. (Rattner and Meller, 2004) New annotation (CR32777) in release 3 of the genome annotation. (FlyBase Genome Annotators, 2002-2003) roX1 and roX2 produce redundant transcripts required for the targeting of the MSL complex. (Meller and Rattner, 2002) The "roX1 chromatin entry site" (roX1-CES) is a region within the roX1 gene that is able to recruit the MSL complex. A 217bp fragment is sufficient for recruitment and spreading of the MSL complex along the flanking chromatin. This short element is sufficient to activate MSL spreading in the absence of active roX1 transcription. (Kageyama et al., 2001) roX1 and roX2 RNAs are required for the association of male-specific lethal (MSL) proteins with the male X chromosome. (Franke and Baker, 1999) roX1 and roX2 RNAs are redundant and may have a direct function in dosage compensation. (Franke and Baker, 1999) The roX1 gene contains sequences that seem to provide an entry site for the MSL complex to recognize the X chromosome. This site is termed the "roX1 chromatin entry site" (roX1-CES). The roX1-CES provides a nucleation site for extensive spreading (in cis or trans) of the complex into flanking chromatin, even when moved to an autosome. (Kelley et al., 1999) roX1 encodes an RNA with no apparent reading frame that shows male-specific expression in the adult fly, and is regulated by genes of the dosage compensation pathway. It is closely linked to yin, a female-specific gene expressed in the ovary. (Amrein and Axel, 1997) The roX1 gene shows a male-specific expression pattern in adult flies, localising specifically to the male X chromosome. roX1 expression is dependent on Sxl, but is independent of tra activity, and is positively regulated by genes of the dosage compensation system such as mle. (Meller et al., 1997)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NR_002097 NR_002098 DDBJ / EMBL / GenBank • AAM50626 AB051842 AI113920 AI402206 AL031130 AY118766 CZ470481 CZ490195 CZ490196 U85980 U97114 Entrez Gene - A searchable database of RefSeq genes. • 3772376 UniProtKB/TrEMBL • Q8MSJ1
Other Crossreferences
Linkouts
	BioGRID - A database of protein and genetic interactions • 533973 DroID - A comprehensive database of gene and protein interactions. • FBgn0019661 DRSC - Results from RNAi screens. • FBgn0019661 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0019661 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 43963 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /polycomb/rox1-1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 3772376 modMine - Data generated by the modENCODE project. • FBgn0019661
Synonyms & Secondary IDs ( 11 )
Reported As
Symbol Synonym	BcDNA:GH10432   CR32777 (Biemar et al., 2006, Hutter, 2008.12.10, Lebo et al., 2009, Perkins et al., 2009, Ni et al., 2008, Ni et al., 2011.7.19) EG:EG0002.2   roX (Nusinow, 2005, de la Cruz et al., 2005, Brehm et al., 2004, Carrozza et al., 2003, Arndt-Jovin et al., 2001, Scott et al., 2000, Kuroda, 1998, Panning and Jaenisch, 1998, Kuroda and Meller, 1997) rox1 (Franke and Baker, 2000, Mahesh and Ranganath, 2000, Franke and Baker, 1999, Furuhashi et al., 2006, Gim et al., 2001) roX1 (Straub and Becker, 2007, Dahlsveen et al., 2006, Mendjan et al., 2006, Deng et al., 2005, Deng and Meller, 2006, Ray and Fox, 2005, Schubeler, 2006, Biemar et al., 2006, Gilfillan et al., 2006, Legube et al., 2006, Inagaki et al., 2005, Prasanth and Spector, 2007, Deng and Meller, 2006, Mendjan and Akhtar, 2007, Pal Bhadra et al., 2006, Bai et al., 2007, Kong and Meller, 2008, Stark et al., 2007, Lecuyer et al., 2007, Larschan et al., 2007, Morra et al., 2008, Li et al., 2008, Park et al., 2007, Hutter, 2008.12.10, Alekseyenko et al., 2008, Patalano et al., 2009, Lebo et al., 2009, Pierre et al., 2008, Hutter, 2009.5.17, Larschan et al., 2007, Hutter, 2009.6.2, Park et al., 2008, Zhimulev et al., 2003, Semeshin et al., 2008, Deng and Meller, 2009, Buscaino et al., 2006, Copeland et al., 2007, Kelley et al., 2008, Menon and Meller, 2009, Spierer et al., 2008, Prabhakaran and Kelley, 2010, Larschan et al., 2011, Gladstein et al., 2010, Sural et al., 2008, Park et al., 2010, Schiemann et al., 2010, Gallach et al., 2010)
Name Synonym	RNA on the X 1 (Meller et al., 1997, Deng and Meller, 2006, Lebo et al., 2009) RNA on the X1 (Menon and Meller, 2009) RNA on the X chromosome 1 (Prabhakaran and Kelley, 2010) RNAonX (Gim et al., 2001) yang (Wu et al., 1995, Meller et al., 1995, )
Secondary FlyBase IDs
	FBgn0015564 FBgn0052777 FBgn0063259
References ( 167 )
Generate a list of	All references relating to this gene ( 167 )
List References by type	Research paper  ( 65 ) Supplementary material  ( 2 ) Review  ( 47 ) Personal communication to FlyBase  ( 7 ) Abstract  ( 36 ) FlyBase analysis  ( 4 ) DNA/RNA sequence record  ( 3 ) Computer file  ( 3 )
Recent research papers ( 6 )
	Larschan et al., 2011, Nature 471(7336): 115--118 X chromosome dosage compensation via enhanced transcriptional elongation in Drosophila. [FBrf0213143] Gallach et al., 2010, BMC Genomics 11: 169 A sequence motif enriched in regions bound by the Drosophila dosage compensation complex. [FBrf0210447] Gladstein et al., 2010, PLoS Genet. 6(7): e1001041 Requirement of male-specific dosage compensation in Drosophila females-implications of early X chromosome gene expression. [FBrf0211448] Park et al., 2010, Biochem. Biophys. Res. Commun. 399(2): 227--231 MSL cis-spreading from roX gene up-regulates the neighboring genes. [FBrf0211621] Prabhakaran and Kelley, 2010, BMC Biol. 8: 80 A new strategy for isolating genes controlling dosage compensation in Drosophila using a simple epigenetic mosaic eye phenotype. [FBrf0211122] Schiemann et al., 2010, Biochem. Biophys. Res. Commun. 402(4): 699--704 The importance of location and orientation of male specific lethal complex binding sites of differing affinities on reporter gene dosage compensation in Drosophila. [FBrf0212385] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...