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Gene Dmel\scf

General Information
Symbol	Dmel\scf	Species	D. melanogaster
Name	supercoiling factor	Annotation symbol	CG9148
Feature type	protein_coding_gene	FlyBase ID	FBgn0025682
Gene Model Status	Current	Stock availability	5 publicly available
Also Known As	DCB-45
Genomic Location
Chromosome (arm)	3L	Recombination map
Cytogenetic map	61F5-61F5	Sequence location	3L:1,298,672..1,300,389 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene supercoiling factor is referred to in FlyBase by the symbol Dmel\scf (CG9148, FBgn0025682). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: DNA topoisomerase activity. There is experimental evidence that it is involved in the biological process: chromatin organization; dosage compensation by hyperactivation of X chromosome; DNA topological change; positive regulation of transcription, DNA-dependent. 9 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Calcium-binding EF-hand; EF-Hand 1, calcium-binding site; EF-hand-like domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 06-18 hour embryonic stages, during early larval stages, during early pupal stages. Summary of FlyAtlas Anatomical Expression Data: Many larval and adult organs/tissues expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: adult thoracico-abdominal ganglion, adult heart, larval fat body, adult male accessory gland. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval hindgut, larval Malpighian tubules, adult fat body, larval/adult salivary gland, adult female reproductive system, adult testis, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1636762_a_at completely aligns to an exonic region common to each of the 3 FlyBase-annotated transcript isoforms of scf. Gene sequence location is 3L:1298672..1300389.
User Contributed Data
	Beta version, feedback welcome
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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FB2013_03
FB2013_02
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 61F5-61F5   Limits computationally determined from genome sequence between P{PZ}l(3)0596705967 and P{PZ}l(3)0264002640
Experimentally Determined Cytological Location
Cytogenetic map Notes References 61F-61F   (determined by in situ hybridisation)   (Kobayashi et al., 1998)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\scf for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.45
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) scf-RA FBtr0089942  NM_058044   1600   329 scf-RB FBtr0089941  NM_058045   1386   192
Additional Transcript Data & Comments
Reported size (kB)	1.8, 1.6 (northern blot) (Kobayashi et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein scf-PA   FBpp0088881   38.0   329   4.30     NP_477392   AAF47468 scf-PB   FBpp0088880   22.3   192   4.09     NP_477393   AAN11468
Additional Polypeptide Data & Comments
Reported size (kDa)	330, 193 (aa); 45, 30 (kD observed) (Kobayashi et al., 1998)
Comments	scf protein is observed in puffs on polytene chromosomes. Upon heat treatment, staining of the endogenous puffs disappears and the heat shock puffs are strongly stained. This indicates that the 30kD scf protein is associated with transcriptionally active chromatin. (Kobayashi et al., 1998) Incubation of recombinant scf protein and Top2 protein with relaxed closed circular DNA results in negative supercoiling of DNA. The reaction is dependent on Ca2+ and ATP. (Kobayashi et al., 1998)
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • EF-Hand 1, calcium-binding site (IPR018247) EF-hand domain (IPR002048) EF-hand-like domain (IPR011992)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA141884   AA695093   AA802722   AE014296 AAF47468   AE014296 AAN11468   AB011261 BAA34049   AC004489   AC005847   AF083298   AI239098   AI388480   AI516984   AI517062   AI531187   AI532448   AI533071   AI533444   AI534572   AI542357   AI544307   AY070689 AAL48160   BE976150   BE976872   BF487384   BF490243   BF491563   BF494504   BF495011   BF500307   BF501159   BF503156   BF503765   BF504295   BG635534   BG636392   BG636832   BG637038   BG637170   BG637536   BG640223   BG641346   BI167776   BI172870   BI214129   BI229574   BI230411   BI230538   BI241600   BI353956   BI367611   BI368112   BI373733   BI375851   BI566288   BI567727   BI575520   BI575620   BI577044   BI577408   BI578457   BI580800   BI582691   BI584976   BI585516   BI585860   BI587600   BI588886   BI591967   BI592560   BI609847   BI610045   BI610614   BI610736   BI611340   BI611568   BI613892   BI623507   BI624336   BI626012   BI632465   BI632642   BI632657   BI632829   BI633168   BI633700   BI633759   BI633930   BI636101   BI636661   BI637192   BI637390   BI637958   BI638077   BI638771   BI639070   BI639134   BI640719   BI640846   BI640859   BP541173   BP543906   BP544516   BP545695   BP549839   BP551093   BP557568   BT024934   CK130404   CK131765   CO152935   CO156014   CO156404   CO178656   CO268860   CO279991   CO281344   CO307997   CO317129   CO317224   CO329809   CO330547   CO335996   CO338395   EC057529   EC065506   EC066589   EC068943   EC069806   EC078073   EC078869   EC082952   EC090361   EC206447   EC208484   EC233726   EC238157   EC262084   EC263196   EC264395   EC264489   EC265783   EL878324   EL885309   EL885349   EL885389   EV579267   EV597392   EV600030   GH758474   GH781974   GH790389   GH795247   GH815372   GH820369   GH827579   GH829985   GH840398   GH850011   GH850403   GH862005   GH873068   GH882025   GH895125   GH911892   GH915032   GH918662   GH922412   GH939338   GH940450
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q8IRH7 Q9W0H8 O96051
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
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   yolk nucleus   (Fisher et al., 2012) embryonic stage 7 -- 8   head mesoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) yolk nucleus   (Fisher et al., 2012) embryonic stage 9 -- 10   crystal cell primordium   (Fisher et al., 2012) Comment:reported as crystal cell specific anlage head mesoderm   (Fisher et al., 2012) plasmatocyte primordium   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) yolk nucleus   (Fisher et al., 2012) embryonic stage 11 -- 12   fat body/gonad primordium   (Fisher et al., 2012) garland cell primordium   (Fisher et al., 2012) plasmatocyte primordium   (Fisher et al., 2012) Comment:reported as plasmatocytes anlage procrystal cell   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) visceral muscle primordium   (Fisher et al., 2012) yolk nucleus   (Fisher et al., 2012) embryonic stage 13 -- 16   crystal cell   (Fisher et al., 2012) embryonic/larval fat body   (Fisher et al., 2012) embryonic/larval garland cell   (Fisher et al., 2012) plasmatocyte   (Fisher et al., 2012) yolk nucleus   (Fisher et al., 2012) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Kobayashi et al., 1998)
Additional Descriptive Data
	scf transcripts are detected in RNA from embryos, larvae, prepupae, pupae and adults on northern blots. (Kobayashi et al., 1998) scf transcripts are detected in RNA from embryos, larvae, prepupae, pupae and adults on northern blots. (Kobayashi et al., 1998)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference embryonic stage | late   embryonic/larval fat body   (Kobayashi et al., 1998) macrophage   (Kobayashi et al., 1998) blastoderm stage     (Kobayashi et al., 1998) larval stage   embryonic/larval salivary gland | anterior   (Kobayashi et al., 1998) macrophage   (Kobayashi et al., 1998) garland cell   (Kobayashi et al., 1998) embryonic/larval hindgut   (Kobayashi et al., 1998) embryonic/larval fat body   (Kobayashi et al., 1998) embryonic/larval salivary gland | posterior   (Kobayashi et al., 1998) pericardial cell   (Kobayashi et al., 1998) trachea   (Kobayashi et al., 1998) oogenesis & adult stage | female   oocyte   (Kobayashi et al., 1998) mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 7 of adulthood -- day 49 of adulthood   adult heart   (Cammarato et al., 2011)
Additional Descriptive Data
	scf protein is detected in blastoderm embryos. It is observed in interphase chromatin but not in metaphase chromosomes. In late embryos, it is observed in macrophages and in larvae it is observed in macrophages, fat body, trachea, intestine, and the posterior part of the salivary gland. Strong staining is observed in oocytes in females. (Kobayashi et al., 1998) :scf protein is detected in blastoderm embryos. In late embryos, it is observed in fat body and macrophages. In larvae, staining is observed in macrophages, garland cells, pericardial cells, and the anterior part of the salivary gland. Strong staining is observed in oocytes in females. (Kobayashi et al., 1998)
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
cytoplasm inferred from direct assay (Kobayashi et al., 1998) nucleus inferred from direct assay (Kobayashi et al., 1998) polytene chromosome inferred from direct assay (Furuhashi et al., 2006) polytene chromosome puff inferred from direct assay (Kobayashi et al., 1998)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Many larval and adult organs/tissues expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: adult thoracico-abdominal ganglion, adult heart, larval fat body, adult male accessory gland. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval hindgut, larval Malpighian tubules, adult fat body, larval/adult salivary gland, adult female reproductive system, adult testis, larval/adult carcass. [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 (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body    1943.2 Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion    543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart    603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland    2708.5 Adult Carcass    219.4 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body  (1943.2) Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion  (543.3) Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart  (603.975) Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland  (2708.5) Adult Carcass    219.4 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body  (1943.2) Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion    543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart    603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland  (2708.5) Adult Carcass    219.4 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body    1943.2 Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion    543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart    603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland    2708.5 Adult Carcass    219.4 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body    1943.2 Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion    543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart    603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland    2708.5 Adult Carcass    219.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body  (1943.2) Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion  543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart  603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland  (2708.5) Adult Carcass    219.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body  (1943.2) Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion    543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart    603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland  (2708.5) Adult Carcass    219.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    337.725 Larval Midgut    62.4 Larval Hindgut    133 Larval Malpighian Tubules    208.5 Larval Fat Body    1943.2 Larval Salivary Gland    379.3 Larval Trachea    88.425 Larval Carcass    270.775 Adult Head    372.2 Adult Eye    244.375 Adult Brain    443.3 Adult Thoracic-Abdominal Ganglion    543.3 Adult Crop    113.4 Adult Midgut    22.1 Adult Hindgut    74.9 Adult Malpighian Tubules    38.8 Adult Fat Body    267.7 Adult Salivary Gland    111 Adult Heart    603.975 Adult VirginFemale Spermatheca    166.5 Adult InseminatedFemale Spermatheca    217.2 Adult Ovary    196.9 Adult Testis    302.6 Adult Male Accessory Gland    2708.5 Adult Carcass    219.4 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    372.2   NA  Eye    244.375   NA  Brain    443.3   337.725  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    543.3   NA  Crop    113.4   62.4  Midgut    22.1   133  Hindgut    74.9   208.5  Malpighian Tubules    no informative data   1943.2  Fat Body    267.7   379.3  Salivary Gland    111   NA  Heart    603.975   88.425  Trachea    NA   NA  VirginFemale Spermatheca    166.5   NA  InseminatedFemale Spermatheca    217.2   NA  Ovary    196.9   NA  Testis    302.6   NA  Male Accessory Gland    2708.5   270.775  Carcass    219.4 FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Tissue Expression Data (modENCODE_mRNA-Seq_tissues)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    137 central nervous system, larvae L3    143 central nervous system, pupae P8    88 head, virgin 1-day female    99 head, virgin 4-day female    67 head, virgin 20-day female    58 head, mated 1-day female    79 head, mated 4-day female    59 head, mated 20-day female    47 head, mated 1-day male    104 head, mated 4-day male    79 head, mated 20-day male    91 salivary gland, larvae L3 wandering    30 salivary gland, white prepupae    213 digestive system, larvae L3 wandering    40 digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering    111 fat body, white prepupae    635 fat body, pupae P8    498 carcass, larvae L3 wandering    101 carcass, 1-day adult    47 carcass, 4-day adult    37 carcass, 20-day adult    41 ovary, virgin 4-day female    53 ovary, mated 4-day female    47 testis, mated 4-day male    264 accessory gland, mated 4-day male    200 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (137) central nervous system, larvae L3  (143) central nervous system, pupae P8  (88) head, virgin 1-day female  (99) head, virgin 4-day female  (67) head, virgin 20-day female  (58) head, mated 1-day female  (79) head, mated 4-day female  (59) head, mated 20-day female  (47) head, mated 1-day male  (104) head, mated 4-day male  (79) head, mated 20-day male  (91) salivary gland, larvae L3 wandering  (30) salivary gland, white prepupae  (213) digestive system, larvae L3 wandering  (40) digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering  (111) fat body, white prepupae  (635) fat body, pupae P8  (498) carcass, larvae L3 wandering  (101) carcass, 1-day adult  (47) carcass, 4-day adult  (37) carcass, 20-day adult  (41) ovary, virgin 4-day female  (53) ovary, mated 4-day female  (47) testis, mated 4-day male  (264) accessory gland, mated 4-day male  (200) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (137) central nervous system, larvae L3  (143) central nervous system, pupae P8    88 head, virgin 1-day female    99 head, virgin 4-day female    67 head, virgin 20-day female    58 head, mated 1-day female    79 head, mated 4-day female    59 head, mated 20-day female    47 head, mated 1-day male  104 head, mated 4-day male    79 head, mated 20-day male    91 salivary gland, larvae L3 wandering    30 salivary gland, white prepupae  (213) digestive system, larvae L3 wandering    40 digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering  (111) fat body, white prepupae  (635) fat body, pupae P8  (498) carcass, larvae L3 wandering  101 carcass, 1-day adult    47 carcass, 4-day adult    37 carcass, 20-day adult    41 ovary, virgin 4-day female    53 ovary, mated 4-day female    47 testis, mated 4-day male  (264) accessory gland, mated 4-day male  (200) Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    137 central nervous system, larvae L3    143 central nervous system, pupae P8    88 head, virgin 1-day female    99 head, virgin 4-day female    67 head, virgin 20-day female    58 head, mated 1-day female    79 head, mated 4-day female    59 head, mated 20-day female    47 head, mated 1-day male    104 head, mated 4-day male    79 head, mated 20-day male    91 salivary gland, larvae L3 wandering    30 salivary gland, white prepupae    213 digestive system, larvae L3 wandering    40 digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering    111 fat body, white prepupae    635 fat body, pupae P8    498 carcass, larvae L3 wandering    101 carcass, 1-day adult    47 carcass, 4-day adult    37 carcass, 20-day adult    41 ovary, virgin 4-day female    53 ovary, mated 4-day female    47 testis, mated 4-day male    264 accessory gland, mated 4-day male    200 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    137 central nervous system, larvae L3    143 central nervous system, pupae P8    88 head, virgin 1-day female    99 head, virgin 4-day female    67 head, virgin 20-day female    58 head, mated 1-day female    79 head, mated 4-day female    59 head, mated 20-day female    47 head, mated 1-day male    104 head, mated 4-day male    79 head, mated 20-day male    91 salivary gland, larvae L3 wandering    30 salivary gland, white prepupae    213 digestive system, larvae L3 wandering    40 digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering    111 fat body, white prepupae    635 fat body, pupae P8    498 carcass, larvae L3 wandering    101 carcass, 1-day adult    47 carcass, 4-day adult    37 carcass, 20-day adult    41 ovary, virgin 4-day female    53 ovary, mated 4-day female    47 testis, mated 4-day male    264 accessory gland, mated 4-day male    200 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (137) central nervous system, larvae L3  (143) central nervous system, pupae P8  (88) head, virgin 1-day female  (99) head, virgin 4-day female  (67) head, virgin 20-day female  (58) head, mated 1-day female  (79) head, mated 4-day female  (59) head, mated 20-day female  (47) head, mated 1-day male  (104) head, mated 4-day male  (79) head, mated 20-day male  (91) salivary gland, larvae L3 wandering  30 salivary gland, white prepupae  (213) digestive system, larvae L3 wandering  (40) digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering  (111) fat body, white prepupae  (635) fat body, pupae P8  (498) carcass, larvae L3 wandering  (101) carcass, 1-day adult  (47) carcass, 4-day adult  (37) carcass, 20-day adult  (41) ovary, virgin 4-day female  (53) ovary, mated 4-day female  (47) testis, mated 4-day male  (264) accessory gland, mated 4-day male  (200) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering  137 central nervous system, larvae L3  143 central nervous system, pupae P8    88 head, virgin 1-day female    99 head, virgin 4-day female    67 head, virgin 20-day female    58 head, mated 1-day female    79 head, mated 4-day female    59 head, mated 20-day female    47 head, mated 1-day male  104 head, mated 4-day male    79 head, mated 20-day male    91 salivary gland, larvae L3 wandering    30 salivary gland, white prepupae  (213) digestive system, larvae L3 wandering    40 digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering  111 fat body, white prepupae  (635) fat body, pupae P8  (498) carcass, larvae L3 wandering  101 carcass, 1-day adult    47 carcass, 4-day adult    37 carcass, 20-day adult    41 ovary, virgin 4-day female    53 ovary, mated 4-day female    47 testis, mated 4-day male  (264) accessory gland, mated 4-day male  (200) Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    137 central nervous system, larvae L3    143 central nervous system, pupae P8    88 head, virgin 1-day female    99 head, virgin 4-day female    67 head, virgin 20-day female    58 head, mated 1-day female    79 head, mated 4-day female    59 head, mated 20-day female    47 head, mated 1-day male    104 head, mated 4-day male    79 head, mated 20-day male    91 salivary gland, larvae L3 wandering    30 salivary gland, white prepupae    213 digestive system, larvae L3 wandering    40 digestive system, 1-day adult    13 digestive system, 4-day adult    11 digestive system, 20-day adult    9 fat body, larvae L3 wandering    111 fat body, white prepupae    635 fat body, pupae P8    498 carcass, larvae L3 wandering    101 carcass, 1-day adult    47 carcass, 4-day adult    37 carcass, 20-day adult    41 ovary, virgin 4-day female    53 ovary, mated 4-day female    47 testis, mated 4-day male    264 accessory gland, mated 4-day male    200 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression 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 high expression to a trough of moderately high expression. Peak expression observed within 06-18 hour embryonic stages, during early larval stages, during early pupal stages. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr    39 embryo 04-06hr    93 embryo 06-08hr    227 embryo 08-10hr    255 embryo 10-12hr    283 embryo 12-14hr    273 embryo 14-16hr    284 embryo 16-18hr    184 embryo 18-20hr    101 embryo 20-22hr    44 embryo 22-24hr    47 larva L1    133 larva L2    167 larva L3 12hr old    168 larva L3 puffstage 1-2    35 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    101 white prepupae new    158 white prepupae 12hr    77 white prepupae 24hr    94 pupae 2d postWPP    99 pupae 3d postWPP    78 pupae 4d postWPP    45 adult male 01day    44 adult male 05day    50 adult male 30day    52 adult female 01day    50 adult female 05day    45 adult female 30day    44 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr  (39) embryo 04-06hr  (93) embryo 06-08hr  (227) embryo 08-10hr  (255) embryo 10-12hr  (283) embryo 12-14hr  (273) embryo 14-16hr  (284) embryo 16-18hr  (184) embryo 18-20hr  (101) embryo 20-22hr  (44) embryo 22-24hr  (47) larva L1  (133) larva L2  (167) larva L3 12hr old  (168) larva L3 puffstage 1-2  (35) larva L3 puffstage 3-6  (56) larva L3 puffstage 7-9  (101) white prepupae new  (158) white prepupae 12hr  (77) white prepupae 24hr  (94) pupae 2d postWPP  (99) pupae 3d postWPP  (78) pupae 4d postWPP  (45) adult male 01day  (44) adult male 05day  (50) adult male 30day  (52) adult female 01day  (50) adult female 05day  (45) adult female 30day  (44) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr    39 embryo 04-06hr    93 embryo 06-08hr  (227) embryo 08-10hr  (255) embryo 10-12hr  (283) embryo 12-14hr  (273) embryo 14-16hr  (284) embryo 16-18hr  (184) embryo 18-20hr  101 embryo 20-22hr    44 embryo 22-24hr    47 larva L1  (133) larva L2  (167) larva L3 12hr old  (168) larva L3 puffstage 1-2    35 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9  101 white prepupae new  (158) white prepupae 12hr    77 white prepupae 24hr    94 pupae 2d postWPP    99 pupae 3d postWPP    78 pupae 4d postWPP    45 adult male 01day    44 adult male 05day    50 adult male 30day    52 adult female 01day    50 adult female 05day    45 adult female 30day    44 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr    39 embryo 04-06hr    93 embryo 06-08hr    227 embryo 08-10hr    255 embryo 10-12hr    283 embryo 12-14hr    273 embryo 14-16hr    284 embryo 16-18hr    184 embryo 18-20hr    101 embryo 20-22hr    44 embryo 22-24hr    47 larva L1    133 larva L2    167 larva L3 12hr old    168 larva L3 puffstage 1-2    35 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    101 white prepupae new    158 white prepupae 12hr    77 white prepupae 24hr    94 pupae 2d postWPP    99 pupae 3d postWPP    78 pupae 4d postWPP    45 adult male 01day    44 adult male 05day    50 adult male 30day    52 adult female 01day    50 adult female 05day    45 adult female 30day    44 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr    39 embryo 04-06hr    93 embryo 06-08hr    227 embryo 08-10hr    255 embryo 10-12hr    283 embryo 12-14hr    273 embryo 14-16hr    284 embryo 16-18hr    184 embryo 18-20hr    101 embryo 20-22hr    44 embryo 22-24hr    47 larva L1    133 larva L2    167 larva L3 12hr old    168 larva L3 puffstage 1-2    35 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    101 white prepupae new    158 white prepupae 12hr    77 white prepupae 24hr    94 pupae 2d postWPP    99 pupae 3d postWPP    78 pupae 4d postWPP    45 adult male 01day    44 adult male 05day    50 adult male 30day    52 adult female 01day    50 adult female 05day    45 adult female 30day    44 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr  (39) embryo 04-06hr  (93) embryo 06-08hr  (227) embryo 08-10hr  (255) embryo 10-12hr  (283) embryo 12-14hr  (273) embryo 14-16hr  (284) embryo 16-18hr  (184) embryo 18-20hr  (101) embryo 20-22hr  (44) embryo 22-24hr  (47) larva L1  (133) larva L2  (167) larva L3 12hr old  (168) larva L3 puffstage 1-2  (35) larva L3 puffstage 3-6  (56) larva L3 puffstage 7-9  (101) white prepupae new  (158) white prepupae 12hr  (77) white prepupae 24hr  (94) pupae 2d postWPP  (99) pupae 3d postWPP  (78) pupae 4d postWPP  (45) adult male 01day  (44) adult male 05day  (50) adult male 30day  (52) adult female 01day  (50) adult female 05day  (45) adult female 30day  (44) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr    39 embryo 04-06hr    93 embryo 06-08hr  (227) embryo 08-10hr  (255) embryo 10-12hr  (283) embryo 12-14hr  (273) embryo 14-16hr  (284) embryo 16-18hr  (184) embryo 18-20hr  101 embryo 20-22hr    44 embryo 22-24hr    47 larva L1  133 larva L2  (167) larva L3 12hr old  (168) larva L3 puffstage 1-2    35 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9  101 white prepupae new  (158) white prepupae 12hr    77 white prepupae 24hr    94 pupae 2d postWPP    99 pupae 3d postWPP    78 pupae 4d postWPP    45 adult male 01day    44 adult male 05day    50 adult male 30day    52 adult female 01day    50 adult female 05day    45 adult female 30day    44 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    23 embryo 02-04hr    39 embryo 04-06hr    93 embryo 06-08hr    227 embryo 08-10hr    255 embryo 10-12hr    283 embryo 12-14hr    273 embryo 14-16hr    284 embryo 16-18hr    184 embryo 18-20hr    101 embryo 20-22hr    44 embryo 22-24hr    47 larva L1    133 larva L2    167 larva L3 12hr old    168 larva L3 puffstage 1-2    35 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    101 white prepupae new    158 white prepupae 12hr    77 white prepupae 24hr    94 pupae 2d postWPP    99 pupae 3d postWPP    78 pupae 4d postWPP    45 adult male 01day    44 adult male 05day    50 adult male 30day    52 adult female 01day    50 adult female 05day    45 adult female 30day    44 Expression Level Scale  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)
modENCODE Cell Lines RNA-Seq
modENCODE Cell Line Expression Data (modENCODE_mRNA-Seq_cell.A) (modENCODE_mRNA-Seq_cell.B)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    981 Schneider line 2 Sg4    1458 embryonic 1182-4H    898 embryonic GM2    470 embryonic Kc167    763 embryonic S1    316 embryonic S3    1209 leg disc CME L1    2151 wing disc CME-W2    350 wing disc ML-DmD8    591 wing disc ML-DmD9    587 wing disc ML-DmD16-c3    577 wing disc ML-DmD21    535 wing disc ML-DmD32    782 haltere disc ML-DmD17-c3    456 eye-antennal disc ML-DmD11    521 antennal disc ML-DmD20-c5    1133 mixed discs ML-DmD4-c1    1045 CNS ML-DmBG1-c1    551 CNS ML-DmBG2-c2    157 tumorous blood cells mbn2    845 ovary fGS/OSS    1040 ovary OSC    359 ovary OSS    253 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (981) Schneider line 2 Sg4  (1458) embryonic 1182-4H  (898) embryonic GM2  (470) embryonic Kc167  (763) embryonic S1  (316) embryonic S3  (1209) leg disc CME L1  (2151) wing disc CME-W2  (350) wing disc ML-DmD8  (591) wing disc ML-DmD9  (587) wing disc ML-DmD16-c3  (577) wing disc ML-DmD21  (535) wing disc ML-DmD32  (782) haltere disc ML-DmD17-c3  (456) eye-antennal disc ML-DmD11  (521) antennal disc ML-DmD20-c5  (1133) mixed discs ML-DmD4-c1  (1045) CNS ML-DmBG1-c1  (551) CNS ML-DmBG2-c2  (157) tumorous blood cells mbn2  (845) ovary fGS/OSS  (1040) ovary OSC  (359) ovary OSS  (253) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (981) Schneider line 2 Sg4  (1458) embryonic 1182-4H  (898) embryonic GM2  (470) embryonic Kc167  (763) embryonic S1  (316) embryonic S3  (1209) leg disc CME L1  (2151) wing disc CME-W2  (350) wing disc ML-DmD8  (591) wing disc ML-DmD9  (587) wing disc ML-DmD16-c3  (577) wing disc ML-DmD21  (535) wing disc ML-DmD32  (782) haltere disc ML-DmD17-c3  (456) eye-antennal disc ML-DmD11  (521) antennal disc ML-DmD20-c5  (1133) mixed discs ML-DmD4-c1  (1045) CNS ML-DmBG1-c1  (551) CNS ML-DmBG2-c2  (157) tumorous blood cells mbn2  (845) ovary fGS/OSS  (1040) ovary OSC  (359) ovary OSS  (253) Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    981 Schneider line 2 Sg4    1458 embryonic 1182-4H    898 embryonic GM2    470 embryonic Kc167    763 embryonic S1    316 embryonic S3    1209 leg disc CME L1    2151 wing disc CME-W2    350 wing disc ML-DmD8    591 wing disc ML-DmD9    587 wing disc ML-DmD16-c3    577 wing disc ML-DmD21    535 wing disc ML-DmD32    782 haltere disc ML-DmD17-c3    456 eye-antennal disc ML-DmD11    521 antennal disc ML-DmD20-c5    1133 mixed discs ML-DmD4-c1    1045 CNS ML-DmBG1-c1    551 CNS ML-DmBG2-c2    157 tumorous blood cells mbn2    845 ovary fGS/OSS    1040 ovary OSC    359 ovary OSS    253 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    981 Schneider line 2 Sg4    1458 embryonic 1182-4H    898 embryonic GM2    470 embryonic Kc167    763 embryonic S1    316 embryonic S3    1209 leg disc CME L1    2151 wing disc CME-W2    350 wing disc ML-DmD8    591 wing disc ML-DmD9    587 wing disc ML-DmD16-c3    577 wing disc ML-DmD21    535 wing disc ML-DmD32    782 haltere disc ML-DmD17-c3    456 eye-antennal disc ML-DmD11    521 antennal disc ML-DmD20-c5    1133 mixed discs ML-DmD4-c1    1045 CNS ML-DmBG1-c1    551 CNS ML-DmBG2-c2    157 tumorous blood cells mbn2    845 ovary fGS/OSS    1040 ovary OSC    359 ovary OSS    253 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (981) Schneider line 2 Sg4  (1458) embryonic 1182-4H  (898) embryonic GM2  (470) embryonic Kc167  (763) embryonic S1  (316) embryonic S3  (1209) leg disc CME L1  (2151) wing disc CME-W2  (350) wing disc ML-DmD8  (591) wing disc ML-DmD9  (587) wing disc ML-DmD16-c3  (577) wing disc ML-DmD21  (535) wing disc ML-DmD32  (782) haltere disc ML-DmD17-c3  (456) eye-antennal disc ML-DmD11  (521) antennal disc ML-DmD20-c5  (1133) mixed discs ML-DmD4-c1  (1045) CNS ML-DmBG1-c1  (551) CNS ML-DmBG2-c2  (157) tumorous blood cells mbn2  (845) ovary fGS/OSS  (1040) ovary OSC  (359) ovary OSS  (253) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (981) Schneider line 2 Sg4  (1458) embryonic 1182-4H  (898) embryonic GM2  (470) embryonic Kc167  (763) embryonic S1  (316) embryonic S3  (1209) leg disc CME L1  (2151) wing disc CME-W2  (350) wing disc ML-DmD8  (591) wing disc ML-DmD9  (587) wing disc ML-DmD16-c3  (577) wing disc ML-DmD21  (535) wing disc ML-DmD32  (782) haltere disc ML-DmD17-c3  (456) eye-antennal disc ML-DmD11  (521) antennal disc ML-DmD20-c5  (1133) mixed discs ML-DmD4-c1  (1045) CNS ML-DmBG1-c1  (551) CNS ML-DmBG2-c2  (157) tumorous blood cells mbn2  (845) ovary fGS/OSS  (1040) ovary OSC  (359) ovary OSS  (253) Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    981 Schneider line 2 Sg4    1458 embryonic 1182-4H    898 embryonic GM2    470 embryonic Kc167    763 embryonic S1    316 embryonic S3    1209 leg disc CME L1    2151 wing disc CME-W2    350 wing disc ML-DmD8    591 wing disc ML-DmD9    587 wing disc ML-DmD16-c3    577 wing disc ML-DmD21    535 wing disc ML-DmD32    782 haltere disc ML-DmD17-c3    456 eye-antennal disc ML-DmD11    521 antennal disc ML-DmD20-c5    1133 mixed discs ML-DmD4-c1    1045 CNS ML-DmBG1-c1    551 CNS ML-DmBG2-c2    157 tumorous blood cells mbn2    845 ovary fGS/OSS    1040 ovary OSC    359 ovary OSS    253 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Cell Line   Expression Level Schneider line 2 S2R+     Schneider line 2 Sg4     embryonic 1182-4H     embryonic GM2     embryonic Kc167     embryonic S1     embryonic S3     leg disc CME L1     wing disc CME-W2     wing disc ML-DmD8     wing disc ML-DmD9     wing disc ML-DmD16-c3     wing disc ML-DmD21     wing disc ML-DmD32     haltere disc ML-DmD17-c3     eye-antennal disc ML-DmD11     antennal disc ML-DmD20-c5     mixed discs ML-DmD4-c1     CNS ML-DmBG1-c1     CNS ML-DmBG2-c2     tumorous blood cells mbn2     ovary fGS/OSS     ovary OSC     ovary OSS
modENCODE Treatments RNA-Seq
modENCODE Treatment Expression Data (modENCODE_mRNA-Seq_treatments)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    110 cold shock, 4-day adult    88 heat shock, 4-day adult    85 Cadmium 50 mM 6 hrs, larvae L3    76 Cadmium 50 mM 12 hrs, larvae L3    103 Cadmium 50 mM 48 hrs, 4-day adult    60 Cadmium 100 mM 48 hrs, 4-day adult    75 Copper 0.5 mM 12 hrs, larvae L3    81 Copper 15 mM 48 hrs, 4-day adult    26 Zinc 5 mM 12 hrs, larvae L3    80 Zinc 4.5 mM 48 hrs, 4-day adult    45 Ethanol 2.5% 3 hrs, larvae L3    90 Ethanol 5% 3 hrs, larvae L3    101 Ethanol 10% 3 hrs, larvae L3    93 Caffeine 1.5 mg/ml 4 hrs, larvae L3    80 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    34 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    44 Paraquat 10 mM 48 hrs, 4-day adult    63 Rotenone 2 μg 12 hrs, larvae L3    98 Rotenone 8 μg 12 hrs, larvae L3    104 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  (110) cold shock, 4-day adult  (88) heat shock, 4-day adult  (85) Cadmium 50 mM 6 hrs, larvae L3  (76) Cadmium 50 mM 12 hrs, larvae L3  (103) Cadmium 50 mM 48 hrs, 4-day adult  (60) Cadmium 100 mM 48 hrs, 4-day adult  (75) Copper 0.5 mM 12 hrs, larvae L3  (81) Copper 15 mM 48 hrs, 4-day adult  26 Zinc 5 mM 12 hrs, larvae L3  (80) Zinc 4.5 mM 48 hrs, 4-day adult  (45) Ethanol 2.5% 3 hrs, larvae L3  (90) Ethanol 5% 3 hrs, larvae L3  (101) Ethanol 10% 3 hrs, larvae L3  (93) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (80) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (34) Caffeine 25 mg/ml 48 hrs, 4-day adult  (68) Paraquat 5 mM 48 hrs, 4-day adult  (44) Paraquat 10 mM 48 hrs, 4-day adult  (63) Rotenone 2 μg 12 hrs, larvae L3  (98) Rotenone 8 μg 12 hrs, larvae L3  (104) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult  (110) cold shock, 4-day adult    88 heat shock, 4-day adult    85 Cadmium 50 mM 6 hrs, larvae L3    76 Cadmium 50 mM 12 hrs, larvae L3  103 Cadmium 50 mM 48 hrs, 4-day adult    60 Cadmium 100 mM 48 hrs, 4-day adult    75 Copper 0.5 mM 12 hrs, larvae L3    81 Copper 15 mM 48 hrs, 4-day adult    26 Zinc 5 mM 12 hrs, larvae L3    80 Zinc 4.5 mM 48 hrs, 4-day adult    45 Ethanol 2.5% 3 hrs, larvae L3    90 Ethanol 5% 3 hrs, larvae L3  101 Ethanol 10% 3 hrs, larvae L3    93 Caffeine 1.5 mg/ml 4 hrs, larvae L3    80 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    34 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    44 Paraquat 10 mM 48 hrs, 4-day adult    63 Rotenone 2 μg 12 hrs, larvae L3    98 Rotenone 8 μg 12 hrs, larvae L3  104 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    110 cold shock, 4-day adult    88 heat shock, 4-day adult    85 Cadmium 50 mM 6 hrs, larvae L3    76 Cadmium 50 mM 12 hrs, larvae L3    103 Cadmium 50 mM 48 hrs, 4-day adult    60 Cadmium 100 mM 48 hrs, 4-day adult    75 Copper 0.5 mM 12 hrs, larvae L3    81 Copper 15 mM 48 hrs, 4-day adult    26 Zinc 5 mM 12 hrs, larvae L3    80 Zinc 4.5 mM 48 hrs, 4-day adult    45 Ethanol 2.5% 3 hrs, larvae L3    90 Ethanol 5% 3 hrs, larvae L3    101 Ethanol 10% 3 hrs, larvae L3    93 Caffeine 1.5 mg/ml 4 hrs, larvae L3    80 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    34 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    44 Paraquat 10 mM 48 hrs, 4-day adult    63 Rotenone 2 μg 12 hrs, larvae L3    98 Rotenone 8 μg 12 hrs, larvae L3    104 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    110 cold shock, 4-day adult    88 heat shock, 4-day adult    85 Cadmium 50 mM 6 hrs, larvae L3    76 Cadmium 50 mM 12 hrs, larvae L3    103 Cadmium 50 mM 48 hrs, 4-day adult    60 Cadmium 100 mM 48 hrs, 4-day adult    75 Copper 0.5 mM 12 hrs, larvae L3    81 Copper 15 mM 48 hrs, 4-day adult    26 Zinc 5 mM 12 hrs, larvae L3    80 Zinc 4.5 mM 48 hrs, 4-day adult    45 Ethanol 2.5% 3 hrs, larvae L3    90 Ethanol 5% 3 hrs, larvae L3    101 Ethanol 10% 3 hrs, larvae L3    93 Caffeine 1.5 mg/ml 4 hrs, larvae L3    80 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    34 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    44 Paraquat 10 mM 48 hrs, 4-day adult    63 Rotenone 2 μg 12 hrs, larvae L3    98 Rotenone 8 μg 12 hrs, larvae L3    104 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  (110) cold shock, 4-day adult  (88) heat shock, 4-day adult  (85) Cadmium 50 mM 6 hrs, larvae L3  (76) Cadmium 50 mM 12 hrs, larvae L3  (103) Cadmium 50 mM 48 hrs, 4-day adult  (60) Cadmium 100 mM 48 hrs, 4-day adult  (75) Copper 0.5 mM 12 hrs, larvae L3  (81) Copper 15 mM 48 hrs, 4-day adult  26 Zinc 5 mM 12 hrs, larvae L3  (80) Zinc 4.5 mM 48 hrs, 4-day adult  (45) Ethanol 2.5% 3 hrs, larvae L3  (90) Ethanol 5% 3 hrs, larvae L3  (101) Ethanol 10% 3 hrs, larvae L3  (93) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (80) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (34) Caffeine 25 mg/ml 48 hrs, 4-day adult  (68) Paraquat 5 mM 48 hrs, 4-day adult  (44) Paraquat 10 mM 48 hrs, 4-day adult  (63) Rotenone 2 μg 12 hrs, larvae L3  (98) Rotenone 8 μg 12 hrs, larvae L3  (104) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult  110 cold shock, 4-day adult    88 heat shock, 4-day adult    85 Cadmium 50 mM 6 hrs, larvae L3    76 Cadmium 50 mM 12 hrs, larvae L3  103 Cadmium 50 mM 48 hrs, 4-day adult    60 Cadmium 100 mM 48 hrs, 4-day adult    75 Copper 0.5 mM 12 hrs, larvae L3    81 Copper 15 mM 48 hrs, 4-day adult    26 Zinc 5 mM 12 hrs, larvae L3    80 Zinc 4.5 mM 48 hrs, 4-day adult    45 Ethanol 2.5% 3 hrs, larvae L3    90 Ethanol 5% 3 hrs, larvae L3  101 Ethanol 10% 3 hrs, larvae L3    93 Caffeine 1.5 mg/ml 4 hrs, larvae L3    80 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    34 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    44 Paraquat 10 mM 48 hrs, 4-day adult    63 Rotenone 2 μg 12 hrs, larvae L3    98 Rotenone 8 μg 12 hrs, larvae L3  104 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    110 cold shock, 4-day adult    88 heat shock, 4-day adult    85 Cadmium 50 mM 6 hrs, larvae L3    76 Cadmium 50 mM 12 hrs, larvae L3    103 Cadmium 50 mM 48 hrs, 4-day adult    60 Cadmium 100 mM 48 hrs, 4-day adult    75 Copper 0.5 mM 12 hrs, larvae L3    81 Copper 15 mM 48 hrs, 4-day adult    26 Zinc 5 mM 12 hrs, larvae L3    80 Zinc 4.5 mM 48 hrs, 4-day adult    45 Ethanol 2.5% 3 hrs, larvae L3    90 Ethanol 5% 3 hrs, larvae L3    101 Ethanol 10% 3 hrs, larvae L3    93 Caffeine 1.5 mg/ml 4 hrs, larvae L3    80 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    34 Caffeine 25 mg/ml 48 hrs, 4-day adult    68 Paraquat 5 mM 48 hrs, 4-day adult    44 Paraquat 10 mM 48 hrs, 4-day adult    63 Rotenone 2 μg 12 hrs, larvae L3    98 Rotenone 8 μg 12 hrs, larvae L3    104 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Treatment   Expression Level extended cold, 4-day adult     cold shock, 4-day adult     heat shock, 4-day adult     Cadmium 50 mM 6 hrs, larvae L3     Cadmium 50 mM 12 hrs, larvae L3     Cadmium 50 mM 48 hrs, 4-day adult     Cadmium 100 mM 48 hrs, 4-day adult     Copper 0.5 mM 12 hrs, larvae L3     Copper 15 mM 48 hrs, 4-day adult     Zinc 5 mM 12 hrs, larvae L3     Zinc 4.5 mM 48 hrs, 4-day adult     Ethanol 2.5% 3 hrs, larvae L3     Ethanol 5% 3 hrs, larvae L3     Ethanol 10% 3 hrs, larvae L3     Caffeine 1.5 mg/ml 4 hrs, larvae L3     Caffeine 2.5 mg/ml 48 hrs, 4-day adult     Caffeine 25 mg/ml 48 hrs, 4-day adult     Paraquat 5 mM 48 hrs, 4-day adult     Paraquat 10 mM 48 hrs, 4-day adult     Rotenone 2 μg 12 hrs, larvae L3     Rotenone 8 μg 12 hrs, larvae L3
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_11 mE1_20_mRNA_expression_cluster_02
External Data & Images
Linkouts	BDGP expression data • RH25118 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025682 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9148-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for scf Stages(s) 1-3 Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | male, with Scer\GAL4Act5C.PI scfdsRNA.Scer\UAS lethal | male | partially, with Scer\GAL4Act5C.PI scfdsRNA.Scer\UAS lethal | recessive | third instar larval stage scf1 viable, with Scer\GAL4pnr-MD237 scfGD4569 viable | female, with Scer\GAL4Act5C.PI scfdsRNA.Scer\UAS Other Phenotypes Allele visible | dominant | homeotic | male, with Scer\GAL4Act5C.PI scfdsRNA.Scer\UAS Phenotype manifest in Allele adult abdominal segment 5 | ectopic | male, with Scer\GAL4Act5C.PI scfdsRNA.Scer\UAS adult abdominal segment 6 | male, with Scer\GAL4Act5C.PI scfdsRNA.Scer\UAS polytene chromosome | male scfHsp83.T:Zzzz\FLAG
Classical Alleles ( 2 )
For All Classical Alleles Show
Allele of scf Class Mutagen Stocks Known lesion scfEY01124 1 -- scf1 ethyl methanesulfonate 0 Yes
Alleles Carried on Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Allele of scf Class Mutagen Stocks Known lesion scfGD4569 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes scfHMS01319 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes scfKK101603 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes scf+tOa in vitro construct - genomic fragment 0 Yes scfdsRNA.Scer\UAS in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes scfHsp83.T:Zzzz\FLAG in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes scfNIG.9148R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4569} NA P{KK101603} NA P{NIG.9148R} NA P{TRiP.HMS01319} NA P{UAS-scf.IR} NA heat-shock construct P{Hsp83-scf.FLAG} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EPgy2}scfEY01124 NA
Gene Ontology: Function, Process & Cellular Component ( 10 unique terms )
Terms Based on Experimental Evidence ( 9 terms )
Molecular Function
CV term Evidence References
contributes_to DNA topoisomerase activity inferred from direct assay (Kobayashi et al., 1998)
Biological Process
CV term Evidence References
chromatin organization inferred from mutant phenotype (Furuhashi et al., 2006) DNA topological change inferred from direct assay (Kobayashi et al., 1998) dosage compensation by hyperactivation of X chromosome inferred from mutant phenotype (Furuhashi et al., 2006) positive regulation of transcription, DNA-dependent inferred from mutant phenotype (Ogasawara et al., 2007)
Cellular Component
CV term Evidence References
cytoplasm inferred from direct assay (Kobayashi et al., 1998) nucleus inferred from direct assay (Kobayashi et al., 1998) polytene chromosome inferred from direct assay (Furuhashi et al., 2006) polytene chromosome puff inferred from direct assay (Kobayashi et al., 1998)
Terms Based on Predictions or Assertions ( 2 terms )
Molecular Function
CV term Evidence References
calcium ion binding inferred from electronic annotation with InterPro:IPR002048, InterPro:IPR011992 (FlyBase Curators et al., 2004-) DNA topoisomerase activity inferred from sequence or structural similarity with UniProtKB:Q93136 (FlyBase, 1992-) non-traceable author statement (Hirose, 1998.2.17)
Biological Process ( 0 terms)
Cellular Component ( 0 terms)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
scf - Akap200 experimental knowledge based (Guruharsha et al., 2011) scf - AnxB10 experimental knowledge based (Guruharsha et al., 2011) scf - Arpc1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Arpc3A anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Arpc4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - B52 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG10638 experimental knowledge based (Guruharsha et al., 2011) scf - CG10641 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG11267 experimental knowledge based (Guruharsha et al., 2011) scf - CG11279 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG11876 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG13539 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG14024 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG14715 experimental knowledge based (Guruharsha et al., 2011) scf - CG14826 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG14969 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG15209 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG15643 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG16817 experimental knowledge based (Guruharsha et al., 2011) scf - CG17724 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG18335 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG1889 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG1907 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG1941 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG2064 experimental knowledge based (Guruharsha et al., 2011) scf - CG2183 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG2862 experimental knowledge based (Guruharsha et al., 2011) scf - CG3008 experimental knowledge based (Guruharsha et al., 2011) scf - CG3045 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG33145 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG3570 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG40160 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG4666 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG5380 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG5961 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG6084 experimental knowledge based (Guruharsha et al., 2011) scf - CG6321 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG7049 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG7091 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG7556 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG8132 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CG8680 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CSN4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Chd64 experimental knowledge based (Guruharsha et al., 2011) scf - CkIIα anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - CkIIβ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Cnx99A experimental knowledge based (Guruharsha et al., 2011) scf - Cpr11B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Crc experimental knowledge based (Guruharsha et al., 2011) scf - Ctr1B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Cyp12d1-p experimental knowledge based (Guruharsha et al., 2011) scf - Cyp28d1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Cyp6a13 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Cyp9b2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - D1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Der-2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Df31 experimental knowledge based (Guruharsha et al., 2011) scf - EndoGI experimental knowledge based (Guruharsha et al., 2011) scf - Eno experimental knowledge based (Guruharsha et al., 2011) scf - Ent2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Fim experimental knowledge based (Guruharsha et al., 2011) scf - Fkbp13 experimental knowledge based (Guruharsha et al., 2011) scf - Glt experimental knowledge based (Guruharsha et al., 2011) scf - Gp93 experimental knowledge based (Guruharsha et al., 2011) scf - Gyk anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - HmgD experimental knowledge based (Guruharsha et al., 2011) scf - Hop experimental knowledge based (Guruharsha et al., 2011) scf - Hsc70-1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Inos experimental knowledge based (Guruharsha et al., 2011) scf - Jon44E anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - MFS3 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - MRP experimental knowledge based (Guruharsha et al., 2011) scf - Moe experimental knowledge based (Guruharsha et al., 2011) scf - Mpcp experimental knowledge based (Guruharsha et al., 2011) scf - Nacα experimental knowledge based (Guruharsha et al., 2011) scf - Nlp experimental knowledge based (Guruharsha et al., 2011) scf - Npc2g anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Oat anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Odc1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - OstΔ experimental knowledge based (Guruharsha et al., 2011) scf - PHGPx experimental knowledge based (Guruharsha et al., 2011) scf - Pdi experimental knowledge based (Guruharsha et al., 2011) scf - Pi3K68D experimental knowledge based (Guruharsha et al., 2011) scf - Pis anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Proct anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Prx2540-2 experimental knowledge based (Guruharsha et al., 2011) scf - RpLP0 experimental knowledge based (Guruharsha et al., 2011) scf - RpS10b experimental knowledge based (Guruharsha et al., 2011) scf - Sdc anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Sh3β experimental knowledge based (Guruharsha et al., 2011) scf - Smn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Spf45 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Sply anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - TER94 experimental knowledge based (Guruharsha et al., 2011) scf - Tace anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Top2 anti bait coimmunoprecipitation, western blot (Kobayashi et al., 1998) scf - Tsp42El anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - Uch experimental knowledge based (Guruharsha et al., 2011) scf - aur anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - ave anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - awd experimental knowledge based (Guruharsha et al., 2011) scf - blp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - boca experimental knowledge based (Guruharsha et al., 2011) scf - capt experimental knowledge based (Guruharsha et al., 2011) scf - chic experimental knowledge based (Guruharsha et al., 2011) scf - cib experimental knowledge based (Guruharsha et al., 2011) scf - eEF1δ experimental knowledge based (Guruharsha et al., 2011) scf - eIF-5A experimental knowledge based (Guruharsha et al., 2011) scf - fabp experimental knowledge based (Guruharsha et al., 2011) scf - fax experimental knowledge based (Guruharsha et al., 2011) scf - fz anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - gk anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - igl anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - l(1)G0156 experimental knowledge based (Guruharsha et al., 2011) scf - nes anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - regucalcin experimental knowledge based (Guruharsha et al., 2011) scf - sec63 experimental knowledge based (Guruharsha et al., 2011) scf - sick anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - slbo anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - smt3 experimental knowledge based (Guruharsha et al., 2011) scf - tsl anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) scf - yip2 experimental knowledge based (Guruharsha et al., 2011)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions scf allele Gene References unspecified Iswi (Furuhashi et al., 2006)
External Data
Linkouts	DPiM - DPiM, Drosophila Protein interaction Map • FBgn0025682 DroID - A comprehensive database of gene and protein interactions. • FBgn0025682 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 38145
Orthologs
OrthoDB Orthologs (58) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6P8G45 Dipteran inclusive ortholog search EOG65B1Q7 Insect inclusive ortholog search EOG615F92 Arthropod inclusive ortholog search EOG6WSTS6 Metazoa inclusive ortholog search EOG6KWXN1
Orthologs in Drosophila Species (EOG6P8G45)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\scf     Drosophila simulans   Dsim\GD13605 Y   Drosophila sechellia   Dsec\GM14396 Y   Drosophila sechellia   Dsec\GM12990     Drosophila erecta   Dere\GG14777 Y   Drosophila yakuba   Dyak\GE21140 Y   Drosophila ananassae   Dana\GF24450 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA21575 Y   Drosophila persimilis   Dper\GL16174 Y   Drosophila willistoni   Dwil\GK20385 Y   Drosophila virilis   Dvir\GJ12145 Y   Drosophila mojavensis   Dmoj\GI13049 Y   Drosophila grimshawi   Dgri\GH15448 Y
Orthologs in non-Drosophila Dipterans (EOG65B1Q7)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL007725   Anopheles gambiae Malaria mosquito  Agam\AGAP010392   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ002187
Orthologs in non-Dipteran Insects (EOG615F92)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\scf   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG012266   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH19340   Atta cephalotes Leafcutter ant  Acep\ACEP12476   Camponotus floridanus Florida carpenter ant  Cflo\CFLO12922   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL20158   Linepithema humile Argentine ant  Lhum\LH24362   Pogonomyrmex barbatus Red harvester ant  Pbar\PB16553   Solenopsis invicta Red fire ant  Sinv\SINV22030   Acyrthosiphon pisum Pea aphid  Apim\ACYPI000413   Bombyx mori Silkmoth  Bmor\BGIBMGA001107   Pediculus humanus Human body louse  Phum\PHUM061080   Tribolium castaneum Red flour beetle  Tcas\GLEAN_08343
Orthologs in non-Insect Arthropods (EOG6WSTS6)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_189509   Ixodes scapularis Deer tick  Isca\ISCW002354
Orthologs in non-Arthropod Metazoa (EOG6KWXN1)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\calu-1 Y Caenorhabditis elegans Nematode  Cele\F08B6.3 Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_023466gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_012317gn Y Danio rerio Zebrafish  Drer\calub Y Danio rerio Zebrafish  Drer\rcn3 Y Danio rerio Zebrafish  Drer\rcn2 Y Danio rerio Zebrafish  Drer\rcn1 Y Danio rerio Zebrafish  Drer\ENSDARG00000045676 Y Xenopus tropicalis Western clawed frog  Xtro\ENSXETG00000017641 Y Xenopus tropicalis Western clawed frog  Xtro\rcn2 Y Xenopus tropicalis Western clawed frog  Xtro\rcn1 Y Xenopus tropicalis Western clawed frog  Xtro\calu Y Gallus gallus Domestic chicken  Ggal\RCN2 Y Gallus gallus Domestic chicken  Ggal\RCN1 Y Mus musculus House mouse  Mmus\Rcn3 Y Mus musculus House mouse  Mmus\Rcn1 Y Mus musculus House mouse  Mmus\Rcn2 Y Mus musculus House mouse  Mmus\Calu Y Rattus norvegicus Norway rat  Rnor\Calu Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000043007 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000015780 Y Rattus norvegicus Norway rat  Rnor\Rcn1 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000031906 Y Homo sapiens Human  Hsap\CALU Y Homo sapiens Human  Hsap\RCN3 Y Homo sapiens Human  Hsap\RCN2 Y
Human Orthologs (3)
Gene OMIM HGNC Hsap\CALU     Hsap\RCN3     Hsap\RCN2
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD13605 Drosophila sechellia Dsec\GM14396 Drosophila erecta Dere\GG14777 Drosophila yakuba Dyak\GE21140 Drosophila ananassae Dana\GF24450 Drosophila pseudoobscura pseudoobscura Dpse\GA21575 Drosophila persimilis Dper\GL16174 Drosophila willistoni Dwil\GK20385 Drosophila virilis Dvir\GJ12145 Drosophila mojavensis Dmoj\GI13049 Drosophila grimshawi Dgri\GH15448
Stocks & Reagents
Stocks Listed in FlyBase ( 5 )
Bloomington	15325 y1 w67c23; P{EPgy2}scfEY01124 34331 y1 sc* v1; P{TRiP.HMS01319}attP2
VDRC	v105422 P{KK101603}VIE-260B v12272 w1118 P{GD4569}v12272 v45224 w1118; P{GD4569}v45224/TM3
Genomic Clones ( 1 )
	BACR17K17 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 162 )
	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	IP16409 RH25118
Other clones	DPiM_RH25118
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT03152 AT03819 AT05627 AT15154 AT16404 AT19070 AT22166 AT26561 AT28330 GH15277 GH19414 GH27603 GH27690 GM02128 GM06214 GM25709 LP12763 RE08239 RE14051 RE14236 RE15560 RE19841 RE27381 RE38715 RE53412 RE54027 RE61121 RE63744 RE71077 RE72331 RE75036 RH09542 RH10282 RH14684 RH14913 RH16140 RH16416 RH17537 RH17905 RH20979 RH24335 RH25552 RH28319 RH30335 RH31219 RH31362 RH33909 RH35495 RH38286 RH43151 RH55785 RH63879 RH66536 SD02123 SD03970 SD04767 SD05253 SD07473 SD08649 SD10811 SD11191 SD12668 SD12974 SD14090 SD14631 SD14884 SD15044 SD15596 SD17669 SD18423 SD19136 SD19390 SD20160 SD20260 SD21144 SD21517 SD21588 SD23704 SD23855 SD23870 SD26255 SD26469 SD26487 SD26711 SD27171 SD27847 SD27915 SD28133
Other clones	38947 118764 153207 162968 163011 191159 192816 521951 527056 527816 556882 571357 AT04963 bs47e05 bs57a07 CK01.26D.D12 CK01.30D.A8 CK01.31A.D10 CK01.72B.H12 CK01.121C.D1 CK01.147C.B10 CK02682 Dmel_dig_011712_0685_1935 Dmel_neb_010032_0846_3165 Dmel_neb_014482_0851_2400 EK057264 EK092913 EK152156 EK156907 EK256353 EK267162 EK267357 EK293918 EK295531 EN00847 EN07210 EN08010 EN11623 EN16713 FGA011C04 FGC023A07 FGC026C09 FGC032G02 FGM103G08 FGM210H06 FGM310A07 IP08196 IP16509 IP16609 IP16709 RP003150610 RP003162980 RP003193869 RP003230148 RP003232002 RP003276070 RP003291421 RP003302868 RP003307297 RP003324709 RP003325379 RP003353137 RP003434105 RP003477088 RP003533887 RP003563120 RP003611488 RP003637685 RP003673651 RP003675848 RP003677353
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0025682 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 38145
Antibody Information
	polyclonal (Kobayashi et al., 1998)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: scf anon-EST:Posey14 (Bayraktaroglu, 2000.11.2)
Additional comments
Other Comments
	Identification: cDNA screen for secreted and transmembrane proteins expressed during embryogenesis. (Kopczynski et al., 1998)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_058044 NM_058045 RefSeq (Proteins) • NP_477392 NP_477393 DDBJ / EMBL / GenBank • AA141884 AAF47468 AAL48160 AAN11468 AAS64929 AB011261 AC004489 AC005847 AF083298 AY070689 BAA34049 BI585516 Entrez Gene - A searchable database of RefSeq genes. • 38145 UniProtKB/TrEMBL • O96051 Q8IRH7 Q9W0H8
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • EF-Hand 1, calcium-binding site (IPR018247) EF-hand domain (IPR002048) EF-hand-like domain (IPR011992) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • RH25118
Linkouts
	DPiM - DPiM, Drosophila Protein interaction Map • FBgn0025682 DroID - A comprehensive database of gene and protein interactions. • FBgn0025682 DRSC - Results from RNAi screens. • FBgn0025682 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025682 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9148-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0025682 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 38145 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 38145 modMine - Data generated by the modENCODE project. • FBgn0025682
Synonyms & Secondary IDs ( 9 )
Reported As
Symbol Synonym	anon-EST:Posey14   BEST:CK02682   CG9148 (Keleman et al., 2009.8.5, Haussmann et al., 2008, Ni et al., 2010.12.1, Cammarato et al., 2011) CK02682 (Kopczynski et al., 1998) DCB-45 (Honore and Vorum, 2000, Kobayashi et al., 1998, Jüse et al., 2009) SCF (Furuhashi and Hirose, 2004, Ng et al., 2002, Honore and Vorum, 2000, Kobayashi et al., 1998, Prestel et al., 2010, Kuo et al., 2006) scf (Altenhein et al., 2006, Furuhashi et al., 2006, Ogasawara et al., 2007, Japanese National Institute of Genetics, 2012.5.21)
Name Synonym	DNA supercoiling factor (Ogasawara et al., 2007) supercoiling factor (Kobayashi et al., 1998, Cammarato et al., 2011)
Secondary FlyBase IDs
	FBgn0025546
References ( 37 )
Generate a list of	All references relating to this gene ( 37 )
List References by type	Research paper  ( 12 ) Supplementary material  ( 5 ) Review  ( 2 ) Personal communication to FlyBase  ( 9 ) Abstract  ( 1 ) FlyBase analysis  ( 3 ) Stock list  ( 1 ) DNA/RNA sequence record  ( 1 ) Website  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers (0)
	All research papers listed in FlyBase were published before 2011 Show research papers ...
Recent reviews (0)
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