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Gene Dmel\Gnf1

General Information
Symbol	Dmel\Gnf1	Species	D. melanogaster
Name	Germ line transcription factor 1	Annotation symbol	CG1119
Feature type	protein_coding_gene	FlyBase ID	FBgn0004913
Gene Model Status	Current	Stock availability	8 publicly available
Also Known As	RFC, RFC1
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	82E2-82E2	Sequence location	3R:732,344..735,803 [+]
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 Germ line transcription factor 1 is referred to in FlyBase by the symbol Dmel\Gnf1 (CG1119, FBgn0004913). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: DNA binding. There is experimental evidence that it is involved in the biological process: lateral inhibition; neurogenesis. 7 alleles are reported. The phenotypes of these alleles are annotated with: trichogen cell; chaeta; mesothoracic tergum. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: AAA+ ATPase domain; ATPase, AAA-type, core; BRCT domain; DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal; DNA replication factor C, large subunit; DNA replication factor RFC1, C-terminal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval central nervous system, larval salivary gland, larval trachea, adult ovary, adult testis. Comments on Affy2 ProbeSet: ProbeSet 1623086_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of Gnf1. Gene sequence location is 3R:732344..735803.
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 82E2-82E2   Limits computationally determined from genome sequence between P{PZ}l(3)0273302733 and P{EP}EP974
Experimentally Determined Cytological Location
Cytogenetic map Notes References 43B-43C     (Hardin, 1997.4.15) 82E-82E   (determined by in situ hybridisation)   (Frank and Cohen, 1992)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Gnf1 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 5.48
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Gnf1-RA FBtr0078837  NM_079505   3208   986 Gnf1-RB FBtr0100159  NM_001014605   3274   1008
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Gnf1-PA   FBpp0078478   108.6   986   9.96     NP_524229   AAF52082 Gnf1-PB   FBpp0099511   111.3   1008   10.03     NP_001014605   AAX52937
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • BRCT domain (IPR001357) AAA+ ATPase domain (IPR003593) ATPase, AAA-type, core (IPR003959) DNA replication factor C, large subunit (IPR012178) DNA replication factor RFC1, C-terminal (IPR013725) DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal (IPR008921) P-loop containing nucleoside triphosphate hydrolase (IPR027417)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA695664   AA696675   AE014297 AAF52082   AE014297 AAX52937   AI512620   AI517952   AX093885   AY122077 AAM52589   BF488869   BF493455   BF493456   BF495267   BF502011   BF502802   BI235443   BP548921   BP548922   BQ102640   BT003618 AAO39621   CO268725   CZ475150   EC071123   EV582308   EV584892   EV598829   GH941902   GH942227   GH948434   GH949488   GH951753   GH953505   GH953924   GH956207   GH956428   GH957053   GH957064   GH958158   GH959656   GH960282   GH961201   GH962073   GH963210   GH965402   GH967681   GH971739   GH975000   GH975094   GH978269   GH978270   GH978329   GH978406   GH980400   GH980509   GH981301   GH981651   GH984658   L17340 AAA28573   U97685 AAB58311
UniProtKB/Swiss-Prot	P35600
UniProtKB/TrEMBL
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References regulatory region FBsf0000435432 3R:732,322..732,436 evidence=Reporter construct (in vitro) (Tsuchiya et al., 2007, Halfon, 2012.6.19)
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 9 -- 10   antennal primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium central brain primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium visual primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium dorsal head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium lateral head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium ventral head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 11 -- 12   embryonic central brain glial cell   (Fisher et al., 2012) lateral cord glial cell   (Fisher et al., 2012) lateral cord neuron   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
microtubule associated complex inferred from direct assay (Hughes et al., 2008) nucleus inferred from direct assay (Frank et al., 1992)
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: Expression at moderate levels in the following post-embryonic organs or tissues: larval central nervous system, larval salivary gland, larval trachea, adult ovary, adult testis. [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    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  None   Low   Moderate   High  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    206.625 Larval Midgut    50.6 Larval Hindgut    79.5 Larval Malpighian Tubules    64.1 Larval Fat Body    70.9 Larval Salivary Gland    101.4 Larval Trachea    153.775 Larval Carcass    97.1 Adult Head    65.3 Adult Eye    68.4 Adult Brain    87.5 Adult Thoracic-Abdominal Ganglion    84.9 Adult Crop    77.4 Adult Midgut    36.3 Adult Hindgut    60.1 Adult Malpighian Tubules    73.8 Adult Fat Body    62.8 Adult Salivary Gland    95.1 Adult Heart    62.45 Adult VirginFemale Spermatheca    49.8 Adult InseminatedFemale Spermatheca    51.5 Adult Ovary    387 Adult Testis    175.5 Adult Male Accessory Gland    83.1 Adult Carcass    70 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    65.3   NA  Eye    68.4   NA  Brain    87.5   206.625  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    84.9   NA  Crop    77.4   50.6  Midgut    36.3   79.5  Hindgut    60.1   64.1  Malpighian Tubules    73.8   70.9  Fat Body    62.8   101.4  Salivary Gland    95.1   NA  Heart    62.45   153.775  Trachea    NA   NA  VirginFemale Spermatheca    49.8   NA  InseminatedFemale Spermatheca    51.5   NA  Ovary    387   NA  Testis    175.5   NA  Male Accessory Gland    83.1   97.1  Carcass    70 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    28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female    105 ovary, mated 4-day female    89 testis, mated 4-day male    32 accessory gland, mated 4-day male    8 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  (28) central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female  (105) ovary, mated 4-day female  (89) testis, mated 4-day male  (32) accessory gland, mated 4-day male    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female  105 ovary, mated 4-day female    89 testis, mated 4-day male    32 accessory gland, mated 4-day male    8 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    28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female    105 ovary, mated 4-day female    89 testis, mated 4-day male    32 accessory gland, mated 4-day male    8 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female    105 ovary, mated 4-day female    89 testis, mated 4-day male    32 accessory gland, mated 4-day male    8 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female  (105) ovary, mated 4-day female  (89) testis, mated 4-day male  32 accessory gland, mated 4-day male    8 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female  105 ovary, mated 4-day female    89 testis, mated 4-day male    32 accessory gland, mated 4-day male    8 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    28 central nervous system, larvae L3    25 central nervous system, pupae P8    8 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    5 head, mated 1-day female    5 head, mated 4-day female    5 head, mated 20-day female    4 head, mated 1-day male    6 head, mated 4-day male    8 head, mated 20-day male    8 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    4 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    4 digestive system, 4-day adult    7 digestive system, 20-day adult    4 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    6 carcass, larvae L3 wandering    18 carcass, 1-day adult    7 carcass, 4-day adult    11 carcass, 20-day adult    8 ovary, virgin 4-day female    105 ovary, mated 4-day female    89 testis, mated 4-day male    32 accessory gland, mated 4-day male    8 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 high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic 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    70 embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day    49 adult female 30day    46 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (70) embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr  26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day  (49) adult female 30day  (46) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day    49 adult female 30day    46 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    70 embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day    49 adult female 30day    46 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day    49 adult female 30day    46 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (70) embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr  26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day  (49) adult female 30day  (46) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day    49 adult female 30day    46 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    70 embryo 02-04hr    9 embryo 04-06hr    21 embryo 06-08hr    26 embryo 08-10hr    18 embryo 10-12hr    12 embryo 12-14hr    10 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    4 embryo 22-24hr    4 larva L1    6 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    14 white prepupae new    13 white prepupae 12hr    18 white prepupae 24hr    17 pupae 2d postWPP    12 pupae 3d postWPP    10 pupae 4d postWPP    7 adult male 01day    11 adult male 05day    15 adult male 30day    11 adult female 01day    17 adult female 05day    49 adult female 30day    46 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+    45 Schneider line 2 Sg4    38 embryonic 1182-4H    28 embryonic GM2    36 embryonic Kc167    35 embryonic S1    40 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    35 wing disc ML-DmD8    30 wing disc ML-DmD9    27 wing disc ML-DmD16-c3    46 wing disc ML-DmD21    27 wing disc ML-DmD32    38 haltere disc ML-DmD17-c3    43 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    30 mixed discs ML-DmD4-c1    39 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    27 tumorous blood cells mbn2    27 ovary fGS/OSS    54 ovary OSC    51 ovary OSS    38 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (45) Schneider line 2 Sg4  (38) embryonic 1182-4H  (28) embryonic GM2  (36) embryonic Kc167  (35) embryonic S1  (40) embryonic S3  (36) leg disc CME L1  (38) wing disc CME-W2  (35) wing disc ML-DmD8  (30) wing disc ML-DmD9  (27) wing disc ML-DmD16-c3  (46) wing disc ML-DmD21  (27) wing disc ML-DmD32  (38) haltere disc ML-DmD17-c3  (43) eye-antennal disc ML-DmD11  (29) antennal disc ML-DmD20-c5  (30) mixed discs ML-DmD4-c1  (39) CNS ML-DmBG1-c1  (47) CNS ML-DmBG2-c2  (27) tumorous blood cells mbn2  (27) ovary fGS/OSS  (54) ovary OSC  (51) ovary OSS  (38) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    45 Schneider line 2 Sg4    38 embryonic 1182-4H    28 embryonic GM2    36 embryonic Kc167    35 embryonic S1    40 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    35 wing disc ML-DmD8    30 wing disc ML-DmD9    27 wing disc ML-DmD16-c3    46 wing disc ML-DmD21    27 wing disc ML-DmD32    38 haltere disc ML-DmD17-c3    43 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    30 mixed discs ML-DmD4-c1    39 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    27 tumorous blood cells mbn2    27 ovary fGS/OSS    54 ovary OSC    51 ovary OSS    38 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+    45 Schneider line 2 Sg4    38 embryonic 1182-4H    28 embryonic GM2    36 embryonic Kc167    35 embryonic S1    40 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    35 wing disc ML-DmD8    30 wing disc ML-DmD9    27 wing disc ML-DmD16-c3    46 wing disc ML-DmD21    27 wing disc ML-DmD32    38 haltere disc ML-DmD17-c3    43 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    30 mixed discs ML-DmD4-c1    39 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    27 tumorous blood cells mbn2    27 ovary fGS/OSS    54 ovary OSC    51 ovary OSS    38 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    45 Schneider line 2 Sg4    38 embryonic 1182-4H    28 embryonic GM2    36 embryonic Kc167    35 embryonic S1    40 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    35 wing disc ML-DmD8    30 wing disc ML-DmD9    27 wing disc ML-DmD16-c3    46 wing disc ML-DmD21    27 wing disc ML-DmD32    38 haltere disc ML-DmD17-c3    43 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    30 mixed discs ML-DmD4-c1    39 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    27 tumorous blood cells mbn2    27 ovary fGS/OSS    54 ovary OSC    51 ovary OSS    38 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (45) Schneider line 2 Sg4  (38) embryonic 1182-4H  28 embryonic GM2  (36) embryonic Kc167  (35) embryonic S1  (40) embryonic S3  (36) leg disc CME L1  (38) wing disc CME-W2  (35) wing disc ML-DmD8  30 wing disc ML-DmD9  27 wing disc ML-DmD16-c3  (46) wing disc ML-DmD21  27 wing disc ML-DmD32  (38) haltere disc ML-DmD17-c3  (43) eye-antennal disc ML-DmD11  29 antennal disc ML-DmD20-c5  30 mixed discs ML-DmD4-c1  (39) CNS ML-DmBG1-c1  (47) CNS ML-DmBG2-c2  27 tumorous blood cells mbn2  27 ovary fGS/OSS  (54) ovary OSC  (51) ovary OSS  (38) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    45 Schneider line 2 Sg4    38 embryonic 1182-4H    28 embryonic GM2    36 embryonic Kc167    35 embryonic S1    40 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    35 wing disc ML-DmD8    30 wing disc ML-DmD9    27 wing disc ML-DmD16-c3    46 wing disc ML-DmD21    27 wing disc ML-DmD32    38 haltere disc ML-DmD17-c3    43 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    30 mixed discs ML-DmD4-c1    39 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    27 tumorous blood cells mbn2    27 ovary fGS/OSS    54 ovary OSC    51 ovary OSS    38 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+    45 Schneider line 2 Sg4    38 embryonic 1182-4H    28 embryonic GM2    36 embryonic Kc167    35 embryonic S1    40 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    35 wing disc ML-DmD8    30 wing disc ML-DmD9    27 wing disc ML-DmD16-c3    46 wing disc ML-DmD21    27 wing disc ML-DmD32    38 haltere disc ML-DmD17-c3    43 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    30 mixed discs ML-DmD4-c1    39 CNS ML-DmBG1-c1    47 CNS ML-DmBG2-c2    27 tumorous blood cells mbn2    27 ovary fGS/OSS    54 ovary OSC    51 ovary OSS    38 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    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult    61 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3    47 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult    45 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult  (61) Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult  (44) Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3  (47) Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (55) Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult  (45) Paraquat 10 mM 48 hrs, 4-day adult  (31) Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult    61 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3    47 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult    45 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 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    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult    61 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3    47 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult    45 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult    61 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3    47 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult    45 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult  (61) Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult  (44) Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3  (47) Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (55) Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult  (45) Paraquat 10 mM 48 hrs, 4-day adult  31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult    61 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3    47 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult    45 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 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    15 cold shock, 4-day adult    9 heat shock, 4-day adult    19 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    24 Cadmium 100 mM 48 hrs, 4-day adult    61 Copper 0.5 mM 12 hrs, larvae L3    4 Copper 15 mM 48 hrs, 4-day adult    44 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    21 Ethanol 2.5% 3 hrs, larvae L3    47 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    5 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    23 Paraquat 5 mM 48 hrs, 4-day adult    45 Paraquat 10 mM 48 hrs, 4-day adult    31 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    4 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_06 mE1_20_mRNA_expression_cluster_04
External Data & Images
Linkouts	BDGP expression data • RE31285 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004913 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG1119-RA;CG6779-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Gnf1 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 Gnf1GD4455 lethal | recessive Gnf1e1 Gnf1E2 viable, with Scer\GAL4pnr-MD237 Gnf1GD4455 Other Phenotypes Allele neuroanatomy defective | larval stage Gnf1GD4455 visible, with Scer\GAL4pnr-MD237 Gnf1GD4455 Phenotype manifest in Allele chaeta, with Scer\GAL4pnr-MD237 Gnf1GD4455 embryonic/larval neuroblast | larval stage Gnf1GD4455 ganglion mother cell | larval stage Gnf1GD4455 mesothoracic tergum, with Scer\GAL4pnr-MD237 Gnf1GD4455 trichogen cell, with Scer\GAL4pnr-MD237 Gnf1GD4455
Classical Alleles ( 5 )
For All Classical Alleles Show
Allele of Gnf1 Class Mutagen Stocks Known lesion Gnf1e1 2 -- Gnf1d06470 P-element activity 1 -- Gnf1MB04029 1 -- Gnf1T41 ethyl methanesulfonate 1 -- Gnf1E2 0 --
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Gnf1 Class Mutagen Stocks Known lesion Gnf1GD4455 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Gnf1GL00346 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Disrupted in	Df(3R)6-7 (Megraw and Kaufman, 1998.10.2) Df(3R)107 (Megraw and Kaufman, 1998.10.2) Df(3R)110 (Megraw and Kaufman, 1998.10.2) Df(3R)BSC175 (Gresens and Cook, 2006.8.29) Df(3R)Z1 (Megraw and Kaufman, 1998.10.2)
Not disrupted in	Df(3R)3-4 (Megraw and Kaufman, 1998.10.2)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4455} NA P{TRiP.GL00346} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EPgy2}EY00866 NA P{XP}Gnf1d06470 NA insertion of enhancer trap binary system Mi{ET1}Gnf1MB04029 No
Gene Ontology: Function, Process & Cellular Component ( 9 unique terms )
Terms Based on Experimental Evidence ( 5 terms )
Molecular Function
CV term Evidence References
DNA binding inferred from direct assay (Frank et al., 1992)
Biological Process
CV term Evidence References
lateral inhibition inferred from mutant phenotype (Mummery-Widmer et al., 2009) neurogenesis inferred from mutant phenotype (Neumüller et al., 2011)
Cellular Component
CV term Evidence References
microtubule associated complex inferred from direct assay (Hughes et al., 2008) nucleus inferred from direct assay (Frank et al., 1992)
Terms Based on Predictions or Assertions ( 6 terms )
Molecular Function
CV term Evidence References
ATP binding inferred from electronic annotation with InterPro:IPR003959, InterPro:IPR012178, InterPro:IPR013725 (FlyBase Curators et al., 2004-) DNA binding non-traceable author statement (Mushegian et al., 1998, Hardin, 1997.4.15, Swiss-Prot Project Members, 1994.6.1) DNA clamp loader activity inferred from electronic annotation with InterPro:IPR012178, InterPro:IPR013725 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
DNA replication inferred from electronic annotation with InterPro:IPR008921, InterPro:IPR012178, InterPro:IPR013725 (FlyBase Curators et al., 2004-) non-traceable author statement (Mushegian et al., 1998, Hardin, 1997.4.15, Swiss-Prot Project Members, 1994.6.1)
Cellular Component
CV term Evidence References
DNA replication factor C complex inferred from electronic annotation with InterPro:IPR012178, InterPro:IPR013725 (FlyBase Curators et al., 2004-) non-traceable author statement (Mushegian et al., 1998, Hardin, 1997.4.15) nucleus non-traceable author statement (Swiss-Prot Project Members, 1994.6.1)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Gnf1 - Aats-asn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Adf1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Atf-2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Bx anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG10496 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG12237 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG14141 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG15220 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - CG1882 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG2199 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - CG3165 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG3548 experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) Gnf1 - CG4951 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG5024 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG5043 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG5196 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG5516 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG5961 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG6629 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG6652 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG7609 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG7686 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG8142 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - CG8289 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG8939 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG8944 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG9344 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CG9799 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CanA1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CanB2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CkIIβ anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - CrebA anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Crk anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Csp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - D1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Dek anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - GABPI anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Hakai anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Irbp experimental knowledge based (Guruharsha et al., 2011) Gnf1 - Kr-h1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Ku80 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - Moca-cyp anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Ote experimental knowledge based (Guruharsha et al., 2011) Gnf1 - Parp experimental knowledge based (Guruharsha et al., 2011) Gnf1 - Pdp1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Pitslre anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - RPA2 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - RfC3 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - RfC38 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - RfC4 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - RpA-70 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - RpLP0 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Sox21a anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Syt14 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - TFAM experimental knowledge based (Guruharsha et al., 2011) Gnf1 - TfAP-2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Tre1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - Ublcp1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - al anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - ana2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - bocksbeutel experimental knowledge based (Guruharsha et al., 2011) Gnf1 - bys anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - capu anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - eIF-4E anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - eIF4E-4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - ems anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - fd59A anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - fs(1)h anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - hbn anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - kuk anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - lack anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - lwr anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - mRpL47 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - mTerf5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - mus210 experimental knowledge based (Guruharsha et al., 2011) Gnf1 - prod experimental knowledge based (Guruharsha et al., 2011) Gnf1 - pyx anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - slbo anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - slp1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - stas anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - tan anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - ttk experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, Mintseris et al., 2009.11.23) Gnf1 - vig anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Gnf1 - vri anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Gnf1 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 65822 DroID - A comprehensive database of gene and protein interactions. • FBgn0004913 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 40607
Orthologs
OrthoDB Orthologs (39) - 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 EOG6M39TZ Dipteran inclusive ortholog search EOG6W6P42 Insect inclusive ortholog search EOG6N5TS0 Arthropod inclusive ortholog search EOG6NGF2S Metazoa inclusive ortholog search EOG6RNQ2G
Orthologs in Drosophila Species (EOG6M39TZ)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Gnf1     Drosophila simulans   Dsim\GD19753 Y   Drosophila sechellia   Dsec\GM10782 Y   Drosophila erecta   Dere\GG12593 Y   Drosophila yakuba   Dyak\GE25440 Y   Drosophila ananassae   Dana\GF18917 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA10826 Y   Drosophila persimilis   Dper\GL21622 Y   Drosophila willistoni   Dwil\GK14054 Y   Drosophila virilis   Dvir\GJ11052 Y   Drosophila mojavensis   Dmoj\GI10247 Y   Drosophila grimshawi   Dgri\GH23049 Y
Orthologs in non-Drosophila Dipterans (EOG6W6P42)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL001324   Anopheles gambiae Malaria mosquito  Agam\AGAP001290   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ017892
Orthologs in non-Dipteran Insects (EOG6N5TS0)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB41305   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG019669   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH20079   Atta cephalotes Leafcutter ant  Acep\ACEP24565   Camponotus floridanus Florida carpenter ant  Cflo\CFLO22074   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL19077   Linepithema humile Argentine ant  Lhum\LH23536   Pogonomyrmex barbatus Red harvester ant  Pbar\PB15018   Solenopsis invicta Red fire ant  Sinv\SINV15069   Acyrthosiphon pisum Pea aphid  Apim\ACYPI002134   Bombyx mori Silkmoth  Bmor\BGIBMGA003318   Pediculus humanus Human body louse  Phum\PHUM268450   Tribolium castaneum Red flour beetle  Tcas\TC013927
Orthologs in non-Insect Arthropods (EOG6NGF2S)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_318220   Ixodes scapularis Deer tick  Isca\ISCW002859
Orthologs in non-Arthropod Metazoa (EOG6RNQ2G)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\rfc-1   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_028579gn   Danio rerio Zebrafish  Drer\rfc1   Xenopus tropicalis Western clawed frog  Xtro\rfc1   Gallus gallus Domestic chicken  Ggal\ENSGALG00000018724   Gallus gallus Domestic chicken  Ggal\RFC1   Mus musculus House mouse  Mmus\Rfc1   Rattus norvegicus Norway rat  Rnor\Rfc1   Homo sapiens Human  Hsap\RFC1
Human Orthologs (1)
Gene OMIM HGNC Hsap\RFC1
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD19753 Drosophila sechellia Dsec\GM10782 Drosophila erecta Dere\GG12593 Drosophila yakuba Dyak\GE25440 Drosophila ananassae Dana\GF18917 Drosophila pseudoobscura pseudoobscura Dpse\GA10826 Drosophila persimilis Dper\GL21622 Drosophila willistoni Dwil\GK14054 Drosophila virilis Dvir\GJ11052 Drosophila mojavensis Dmoj\GI10247 Drosophila grimshawi Dgri\GH23049
Stocks & Reagents
Stocks Listed in FlyBase ( 8 )
Bloomington	4790 Gnf1e1/TM3, Sb1 9443 Gnf1T41/TM6B, Tb1 24561 w1118; Mi{ET1}Gnf1MB04029 35423 y1 sc* v1; P{TRiP.GL00346}attP2/TM3, Sb1
Harvard	- P{XP}Gnf1d06470
Kyoto	107885 Gnf1e1/TM3, Sb1
VDRC	v10942 w1118; P{GD4455}v10942 v10943 w1118; P{GD4455}v10943
Genomic Clones ( 1 )
	BACR11M01 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 48 )
	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	AT18625 GH06471
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT04154 AT17617 AT24544 GM03221 GM08116 LD44541 RE31285
Other clones	AT01758 CK01.121A.E11 Dmel_dig_010832_0669_1652 Dmel_dig_016127_0699_3486 Dmel_neb_013113_0847_2225 EK092520 FGM002F03 RP004041262 RP004066254 RP004066433 RP004079284 RP004083313 RP004122463 RP004129044 RP004154501 RP004184290 RP004195945 RP004198803 RP004229827 RP004233144 RP004240645 RP004241912 RP004258653 RP004260284 RP004261052 RP004261187 RP004261745 RP004261755 RP004350414 RP004352038 RP004407797 RP004464419 RP004492942 RP004517160 RP004528626 RP004536813 RP004546679 RP004553955 UUGC0014
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0004913 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 40607
Antibody Information
	polyclonal (Tsuchiya et al., 2007)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Gnf1 CG1119 (Lai, 1999.11)
Source for database merge of
Additional comments
Other Comments
	Area matching Drosophila Germline transcription factor gene, Acc. No. L17340. (Davies, 2001.3.15) Gnf1 has been sequenced and its complete ovarian expression pattern analysed. (Frank and Cohen, 1992) Isolated from ovarian nuclear extracts on the basis of its specific binding to an Hsp26 upstream regulatory DNA fragment. (Frank et al., 1992)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079505 NM_001014605 RefSeq (Proteins) • NP_524229 NP_001014605 DDBJ / EMBL / GenBank • AAA28573 AAB58311 AAF52082 AAF52082.1 AAM52589 AAO39621 AAX52937 AI517952 AX093885 AY122077 BF502802 BT003618 CZ475150 L17340 U97685 Entrez Gene - A searchable database of RefSeq genes. • 40607 UniProtKB/Swiss-Prot • P35600
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • BRCT domain (IPR001357) AAA+ ATPase domain (IPR003593) ATPase, AAA-type, core (IPR003959) DNA replication factor C, large subunit (IPR012178) DNA replication factor RFC1, C-terminal (IPR013725) DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal (IPR008921) P-loop containing nucleoside triphosphate hydrolase (IPR027417) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • RE31285
Linkouts
	BioGRID - A database of protein and genetic interactions • 65822 DroID - A comprehensive database of gene and protein interactions. • FBgn0004913 DRSC - Results from RNAi screens. • FBgn0004913 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0004913 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG1119-RA;CG6779-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0004913 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 40607 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 40607 modMine - Data generated by the modENCODE project. • FBgn0004913
Synonyms & Secondary IDs ( 21 )
Reported As
Symbol Synonym	CG1119 (Krause et al., 2001, Hughes et al., 2008, Ni et al., 2011.7.19, Bridon et al., 2012) DmRFC1 (Krause et al., 2001) dRFC140 (Tsuchiya et al., 2007) dRF-Cp140 (Keller et al., 1999) Gnf-1   Gnf1 (Gresens and Cook, 2006.8.29, De Lucia et al., 2005, Cayirlioglu et al., 2003, Kallappagoudar et al., 2010, Dahdal et al., 2010, Bridon et al., 2012) gnf1 (Foglietti et al., 2006) GTF-1 (Frank and Cohen, 1992) gtf1   Gtf1   ONF-CAACAA (Frank et al., 1992) RFC (Allen et al., 1998, Mushegian et al., 1998) RfC (Cayirlioglu et al., 2003) RFC1 (Nie et al., 2009) rfc1 (Tsuchiya et al., 2007) RF-C 140 (Mossi et al., 1997) RfC140 (Fisher et al., 2008)
Name Synonym	germline transcription factor (Frank, 1993) Germ line transcription factor 1   Replication-factor-C 140kD subunit   Replication factor C 140kD subunit (Tsuchiya et al., 2007)
Secondary FlyBase IDs
	FBgn0010351 FBgn0020380 FBgn0025510
References ( 48 )
Generate a list of	All references relating to this gene ( 48 )
List References by type	Research paper  ( 16 ) Supplementary material  ( 6 ) Personal communication to FlyBase  ( 14 ) Abstract  ( 1 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 3 ) Curated genome annotation  ( 3 ) Patent  ( 1 ) Protein sequence record  ( 1 ) Website  ( 1 )
Recent research papers ( 1 )
	Bridon et al., 2012, J. Proteome Res. 11(2): 927--940 Improvement of Phosphoproteome Analyses Using FAIMS and Decision Tree Fragmentation. Application to the Insulin Signaling Pathway in Drosophila melanogaster S2 Cells. [FBrf0217365] Show all research papers ...