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Gene Dmel\Not1

General Information
Symbol	Dmel\Not1	Species	D. melanogaster
Name	Not1	Annotation symbol	CG34407
Feature type	protein_coding_gene	FlyBase ID	FBgn0085436
Gene Model Status	Current	Stock availability	12 publicly available
Also Known As	CG1884, CG1874
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	45F4-45F4	Sequence location	2R:5,453,651..5,466,512 [-]
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 Not1 is referred to in FlyBase by the symbol Dmel\Not1 (CG34407, FBgn0085436). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: protein binding. There is experimental evidence that it is involved in the biological process: dendrite morphogenesis; mitotic G2 DNA damage checkpoint; muscle organ development; nuclear-transcribed mRNA poly(A) tail shortening; neurogenesis. 12 alleles are reported. The phenotypes of these alleles are annotated with: eye; wing. It has 6 annotated transcripts and 6 annotated polypeptides. Protein features are: CCR4-Not complex component, Not1, C-terminal; CCR4-Not complex, Not1 subunit, domain of unknown function DUF3819. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderately high expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, during early pupal stages, in stages of adults of both sexes. Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. Gene sequence location is 2R:5453651..5466512.
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	Alleles Not1[MI07631]
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 45F4-45F4   Limits computationally determined from genome sequence between P{EP}EP2165&P{lacW}l(2)k01301k01301 and P{lacW}l(2)k09501k09501
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Not1 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Low-frequency RNA-Seq exon junction(s) not annotated. Gene model reviewed during 5.46 Gene model reviewed during 5.49 Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Not1-RC FBtr0112672  NM_001103772   8700   2505 Not1-RD FBtr0112673  NM_001103773   8694   2503 Not1-RE FBtr0112674  NM_001103774   8201   2220 Not1-RF FBtr0302122  NM_001169628   8340   2492 Not1-RG FBtr0304957  NM_165678   10068   2505 Not1-RH FBtr0339394     8191   2511
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 Not1-PC   FBpp0111584   281.1   2505   6.74     NP_001097242   ABV53739 Not1-PD   FBpp0111585   280.9   2503   6.72     NP_001097243   ABV53740 Not1-PE   FBpp0111586   249.8   2220   6.95     NP_001097244   ABV53741 Not1-PF   FBpp0291332   279.9   2492   6.80     NP_001163099   AAM71069 Not1-PG   FBpp0293496   281.1   2505   6.74     NP_724798   AAF58926 Not1-PH   FBpp0308486   281.7   2511   6.72
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • CCR4-Not complex component, Not1, C-terminal (IPR007196) CCR4-Not complex, Not1 subunit, domain of unknown function DUF3819 (IPR024557)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA263427   AA391475   AA438287   AA438925   AA697114   AA699194   AA735404   AA801872   AA820528   AA949973   AE013599 AAF58926   AE013599 AAM71069   AE013599 ABV53739   AE013599 ABV53740   AE013599 ABV53741   AI124264   AI261120   AI294718   AI404459   AI406258   AI513024   AI513401   AI514909   AI516316   AI531124   AI532801   AI532878   AI533384   AI534388   AI542129   AI542461   AI543035   AW943599   AW944487   AX094097   AY058782 AAL14011   AY075421   BF488034   BF492627   BG635839   BG638261   BG639147   BG639528   BG639969   BI355530   BI355804   BP548303   BP550429   BP550430   BP551732   BP554098   BP554099   BP557577   BP557578   BQ102769   BQ103448   BT001446 AAN71201   BT072827   CA803991   CA806279   CK131452   CK659553   CK660876   CO155171   CO155709   CO186791   CO191888   CO266354   CO273059   CO279300   CO283571   CO284445   CO288000   CO300277   CO305486   CO307026   CO309352   CO309930   CO318008   CO321640   CO326534   CO328244   CO329449   CO343814   CX309440   CX309502   DN154436   EC057441   EC064802   EC065222   EC065972   EC072169   EC074138   EC075966   EC078815   EC079086   EC088898   EC091071   EC194929   EC199045   EC204245   EC216324   EC217827   EC221158   EC224016   EC225017   EC236419   EC237310   EC237662   EC242000   EC246350   EC253812   EC255409   EC255613   EC263905   EC265654   EL875227   EL884097   EL884220   EV580646   EV582048   EV584463   EV590273   EV596560   GH942969   GH949867
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	A8DY81 A8DY82 A8DY80 E2QCN4 Q8IH39 Q95TG6
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   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   anterior endoderm anlage   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) hindgut anlage   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 9 -- 10   anterior endoderm   (Fisher et al., 2012) inclusive hindgut primordium   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 11 -- 12   anterior midgut primordium   (Fisher et al., 2012) central brain primordium   (Fisher et al., 2012) embryonic central brain neuron   (Fisher et al., 2012) embryonic optic lobe primordium   (Fisher et al., 2012) hindgut proper primordium   (Fisher et al., 2012) lateral cord neuron   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior midgut primordium   (Fisher et al., 2012) somatic muscle primordium   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic brain   (Fisher et al., 2012) embryonic/larval midgut   (Fisher et al., 2012) embryonic/larval nervous system   (Fisher et al., 2012) gonad   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) ventral nerve cord   (Fisher et al., 2012)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 5 of adulthood & male -- day 7 of adulthood & male   spermatozoon   (Wasbrough et al., 2010)
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
CCR4-NOT complex inferred from direct assay (Temme et al., 2010) cytoplasm inferred from direct assay (Temme et al., 2010)
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: No expression detected in any larval or adult organs/tissues. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) 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 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    57 central nervous system, larvae L3    61 central nervous system, pupae P8    32 head, virgin 1-day female    24 head, virgin 4-day female    26 head, virgin 20-day female    31 head, mated 1-day female    25 head, mated 4-day female    26 head, mated 20-day female    29 head, mated 1-day male    34 head, mated 4-day male    35 head, mated 20-day male    42 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    35 digestive system, larvae L3 wandering    37 digestive system, 1-day adult    21 digestive system, 4-day adult    29 digestive system, 20-day adult    32 fat body, larvae L3 wandering    22 fat body, white prepupae    39 fat body, pupae P8    17 carcass, larvae L3 wandering    56 carcass, 1-day adult    29 carcass, 4-day adult    30 carcass, 20-day adult    33 ovary, virgin 4-day female    71 ovary, mated 4-day female    65 testis, mated 4-day male    35 accessory gland, mated 4-day male    16 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (57) central nervous system, larvae L3  (61) central nervous system, pupae P8  (32) head, virgin 1-day female    24 head, virgin 4-day female  26 head, virgin 20-day female  (31) head, mated 1-day female    25 head, mated 4-day female  26 head, mated 20-day female  (29) head, mated 1-day male  (34) head, mated 4-day male  (35) head, mated 20-day male  (42) salivary gland, larvae L3 wandering    6 salivary gland, white prepupae  (35) digestive system, larvae L3 wandering  (37) digestive system, 1-day adult    21 digestive system, 4-day adult  (29) digestive system, 20-day adult  (32) fat body, larvae L3 wandering    22 fat body, white prepupae  (39) fat body, pupae P8    17 carcass, larvae L3 wandering  (56) carcass, 1-day adult  (29) carcass, 4-day adult  (30) carcass, 20-day adult  (33) ovary, virgin 4-day female  (71) ovary, mated 4-day female  (65) testis, mated 4-day male  (35) accessory gland, mated 4-day male    16 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    57 central nervous system, larvae L3    61 central nervous system, pupae P8    32 head, virgin 1-day female    24 head, virgin 4-day female    26 head, virgin 20-day female    31 head, mated 1-day female    25 head, mated 4-day female    26 head, mated 20-day female    29 head, mated 1-day male    34 head, mated 4-day male    35 head, mated 20-day male    42 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    35 digestive system, larvae L3 wandering    37 digestive system, 1-day adult    21 digestive system, 4-day adult    29 digestive system, 20-day adult    32 fat body, larvae L3 wandering    22 fat body, white prepupae    39 fat body, pupae P8    17 carcass, larvae L3 wandering    56 carcass, 1-day adult    29 carcass, 4-day adult    30 carcass, 20-day adult    33 ovary, virgin 4-day female    71 ovary, mated 4-day female    65 testis, mated 4-day male    35 accessory gland, mated 4-day male    16 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    57 central nervous system, larvae L3    61 central nervous system, pupae P8    32 head, virgin 1-day female    24 head, virgin 4-day female    26 head, virgin 20-day female    31 head, mated 1-day female    25 head, mated 4-day female    26 head, mated 20-day female    29 head, mated 1-day male    34 head, mated 4-day male    35 head, mated 20-day male    42 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    35 digestive system, larvae L3 wandering    37 digestive system, 1-day adult    21 digestive system, 4-day adult    29 digestive system, 20-day adult    32 fat body, larvae L3 wandering    22 fat body, white prepupae    39 fat body, pupae P8    17 carcass, larvae L3 wandering    56 carcass, 1-day adult    29 carcass, 4-day adult    30 carcass, 20-day adult    33 ovary, virgin 4-day female    71 ovary, mated 4-day female    65 testis, mated 4-day male    35 accessory gland, mated 4-day male    16 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    57 central nervous system, larvae L3    61 central nervous system, pupae P8    32 head, virgin 1-day female    24 head, virgin 4-day female    26 head, virgin 20-day female    31 head, mated 1-day female    25 head, mated 4-day female    26 head, mated 20-day female    29 head, mated 1-day male    34 head, mated 4-day male    35 head, mated 20-day male    42 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    35 digestive system, larvae L3 wandering    37 digestive system, 1-day adult    21 digestive system, 4-day adult    29 digestive system, 20-day adult    32 fat body, larvae L3 wandering    22 fat body, white prepupae    39 fat body, pupae P8    17 carcass, larvae L3 wandering    56 carcass, 1-day adult    29 carcass, 4-day adult    30 carcass, 20-day adult    33 ovary, virgin 4-day female    71 ovary, mated 4-day female    65 testis, mated 4-day male    35 accessory gland, mated 4-day male    16 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  (57) central nervous system, larvae L3  (61) central nervous system, pupae P8  32 head, virgin 1-day female    24 head, virgin 4-day female  26 head, virgin 20-day female  31 head, mated 1-day female    25 head, mated 4-day female  26 head, mated 20-day female  29 head, mated 1-day male  (34) head, mated 4-day male  (35) head, mated 20-day male  (42) salivary gland, larvae L3 wandering    6 salivary gland, white prepupae  (35) digestive system, larvae L3 wandering  (37) digestive system, 1-day adult    21 digestive system, 4-day adult  29 digestive system, 20-day adult  32 fat body, larvae L3 wandering    22 fat body, white prepupae  (39) fat body, pupae P8    17 carcass, larvae L3 wandering  (56) carcass, 1-day adult  29 carcass, 4-day adult  30 carcass, 20-day adult  (33) ovary, virgin 4-day female  (71) ovary, mated 4-day female  (65) testis, mated 4-day male  (35) accessory gland, mated 4-day male    16 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    57 central nervous system, larvae L3    61 central nervous system, pupae P8    32 head, virgin 1-day female    24 head, virgin 4-day female    26 head, virgin 20-day female    31 head, mated 1-day female    25 head, mated 4-day female    26 head, mated 20-day female    29 head, mated 1-day male    34 head, mated 4-day male    35 head, mated 20-day male    42 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    35 digestive system, larvae L3 wandering    37 digestive system, 1-day adult    21 digestive system, 4-day adult    29 digestive system, 20-day adult    32 fat body, larvae L3 wandering    22 fat body, white prepupae    39 fat body, pupae P8    17 carcass, larvae L3 wandering    56 carcass, 1-day adult    29 carcass, 4-day adult    30 carcass, 20-day adult    33 ovary, virgin 4-day female    71 ovary, mated 4-day female    65 testis, mated 4-day male    35 accessory gland, mated 4-day male    16 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    57 central nervous system, larvae L3    61 central nervous system, pupae P8    32 head, virgin 1-day female    24 head, virgin 4-day female    26 head, virgin 20-day female    31 head, mated 1-day female    25 head, mated 4-day female    26 head, mated 20-day female    29 head, mated 1-day male    34 head, mated 4-day male    35 head, mated 20-day male    42 salivary gland, larvae L3 wandering    6 salivary gland, white prepupae    35 digestive system, larvae L3 wandering    37 digestive system, 1-day adult    21 digestive system, 4-day adult    29 digestive system, 20-day adult    32 fat body, larvae L3 wandering    22 fat body, white prepupae    39 fat body, pupae P8    17 carcass, larvae L3 wandering    56 carcass, 1-day adult    29 carcass, 4-day adult    30 carcass, 20-day adult    33 ovary, virgin 4-day female    71 ovary, mated 4-day female    65 testis, mated 4-day male    35 accessory gland, mated 4-day male    16 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 moderately high expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, during early pupal stages, in stages of adults of both sexes. [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    82 embryo 04-06hr    62 embryo 06-08hr    68 embryo 08-10hr    58 embryo 10-12hr    21 embryo 12-14hr    45 embryo 14-16hr    46 embryo 16-18hr    47 embryo 18-20hr    38 embryo 20-22hr    45 embryo 22-24hr    52 larva L1    30 larva L2    31 larva L3 12hr old    29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    60 white prepupae new    62 white prepupae 12hr    48 white prepupae 24hr    56 pupae 2d postWPP    44 pupae 3d postWPP    34 pupae 4d postWPP    34 adult male 01day    49 adult male 05day    56 adult male 30day    53 adult female 01day    44 adult female 05day    64 adult female 30day    60 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  (82) embryo 04-06hr  (62) embryo 06-08hr  (68) embryo 08-10hr  (58) embryo 10-12hr    21 embryo 12-14hr  (45) embryo 14-16hr  (46) embryo 16-18hr  (47) embryo 18-20hr  (38) embryo 20-22hr  (45) embryo 22-24hr  (52) larva L1  (30) larva L2  (31) larva L3 12hr old  (29) larva L3 puffstage 1-2    22 larva L3 puffstage 3-6  (56) larva L3 puffstage 7-9  (60) white prepupae new  (62) white prepupae 12hr  (48) white prepupae 24hr  (56) pupae 2d postWPP  (44) pupae 3d postWPP  (34) pupae 4d postWPP  (34) adult male 01day  (49) adult male 05day  (56) adult male 30day  (53) adult female 01day  (44) adult female 05day  (64) adult female 30day  (60) 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    82 embryo 04-06hr    62 embryo 06-08hr    68 embryo 08-10hr    58 embryo 10-12hr    21 embryo 12-14hr    45 embryo 14-16hr    46 embryo 16-18hr    47 embryo 18-20hr    38 embryo 20-22hr    45 embryo 22-24hr    52 larva L1    30 larva L2    31 larva L3 12hr old    29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    60 white prepupae new    62 white prepupae 12hr    48 white prepupae 24hr    56 pupae 2d postWPP    44 pupae 3d postWPP    34 pupae 4d postWPP    34 adult male 01day    49 adult male 05day    56 adult male 30day    53 adult female 01day    44 adult female 05day    64 adult female 30day    60 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    82 embryo 04-06hr    62 embryo 06-08hr    68 embryo 08-10hr    58 embryo 10-12hr    21 embryo 12-14hr    45 embryo 14-16hr    46 embryo 16-18hr    47 embryo 18-20hr    38 embryo 20-22hr    45 embryo 22-24hr    52 larva L1    30 larva L2    31 larva L3 12hr old    29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    60 white prepupae new    62 white prepupae 12hr    48 white prepupae 24hr    56 pupae 2d postWPP    44 pupae 3d postWPP    34 pupae 4d postWPP    34 adult male 01day    49 adult male 05day    56 adult male 30day    53 adult female 01day    44 adult female 05day    64 adult female 30day    60 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    82 embryo 04-06hr    62 embryo 06-08hr    68 embryo 08-10hr    58 embryo 10-12hr    21 embryo 12-14hr    45 embryo 14-16hr    46 embryo 16-18hr    47 embryo 18-20hr    38 embryo 20-22hr    45 embryo 22-24hr    52 larva L1    30 larva L2    31 larva L3 12hr old    29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    60 white prepupae new    62 white prepupae 12hr    48 white prepupae 24hr    56 pupae 2d postWPP    44 pupae 3d postWPP    34 pupae 4d postWPP    34 adult male 01day    49 adult male 05day    56 adult male 30day    53 adult female 01day    44 adult female 05day    64 adult female 30day    60 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  (82) embryo 04-06hr  (62) embryo 06-08hr  (68) embryo 08-10hr  (58) embryo 10-12hr    21 embryo 12-14hr  (45) embryo 14-16hr  (46) embryo 16-18hr  (47) embryo 18-20hr  (38) embryo 20-22hr  (45) embryo 22-24hr  (52) larva L1  30 larva L2  31 larva L3 12hr old  29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6  (56) larva L3 puffstage 7-9  (60) white prepupae new  (62) white prepupae 12hr  (48) white prepupae 24hr  (56) pupae 2d postWPP  (44) pupae 3d postWPP  (34) pupae 4d postWPP  (34) adult male 01day  (49) adult male 05day  (56) adult male 30day  (53) adult female 01day  (44) adult female 05day  (64) adult female 30day  (60) 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    82 embryo 04-06hr    62 embryo 06-08hr    68 embryo 08-10hr    58 embryo 10-12hr    21 embryo 12-14hr    45 embryo 14-16hr    46 embryo 16-18hr    47 embryo 18-20hr    38 embryo 20-22hr    45 embryo 22-24hr    52 larva L1    30 larva L2    31 larva L3 12hr old    29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    60 white prepupae new    62 white prepupae 12hr    48 white prepupae 24hr    56 pupae 2d postWPP    44 pupae 3d postWPP    34 pupae 4d postWPP    34 adult male 01day    49 adult male 05day    56 adult male 30day    53 adult female 01day    44 adult female 05day    64 adult female 30day    60 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    82 embryo 04-06hr    62 embryo 06-08hr    68 embryo 08-10hr    58 embryo 10-12hr    21 embryo 12-14hr    45 embryo 14-16hr    46 embryo 16-18hr    47 embryo 18-20hr    38 embryo 20-22hr    45 embryo 22-24hr    52 larva L1    30 larva L2    31 larva L3 12hr old    29 larva L3 puffstage 1-2    22 larva L3 puffstage 3-6    56 larva L3 puffstage 7-9    60 white prepupae new    62 white prepupae 12hr    48 white prepupae 24hr    56 pupae 2d postWPP    44 pupae 3d postWPP    34 pupae 4d postWPP    34 adult male 01day    49 adult male 05day    56 adult male 30day    53 adult female 01day    44 adult female 05day    64 adult female 30day    60 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+    57 Schneider line 2 Sg4    19 embryonic 1182-4H    66 embryonic GM2    79 embryonic Kc167    40 embryonic S1    65 embryonic S3    63 leg disc CME L1    33 wing disc CME-W2    44 wing disc ML-DmD8    54 wing disc ML-DmD9    44 wing disc ML-DmD16-c3    57 wing disc ML-DmD21    4 wing disc ML-DmD32    34 haltere disc ML-DmD17-c3    75 eye-antennal disc ML-DmD11    53 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1    48 CNS ML-DmBG2-c2    85 tumorous blood cells mbn2    62 ovary fGS/OSS    63 ovary OSC    80 ovary OSS    33 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (57) Schneider line 2 Sg4    19 embryonic 1182-4H  (66) embryonic GM2  (79) embryonic Kc167  (40) embryonic S1  (65) embryonic S3  (63) leg disc CME L1  (33) wing disc CME-W2  (44) wing disc ML-DmD8  (54) wing disc ML-DmD9  (44) wing disc ML-DmD16-c3  (57) wing disc ML-DmD21    4 wing disc ML-DmD32  (34) haltere disc ML-DmD17-c3  (75) eye-antennal disc ML-DmD11  (53) antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1  (48) CNS ML-DmBG2-c2  (85) tumorous blood cells mbn2  (62) ovary fGS/OSS  (63) ovary OSC  (80) ovary OSS  (33) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    57 Schneider line 2 Sg4    19 embryonic 1182-4H    66 embryonic GM2    79 embryonic Kc167    40 embryonic S1    65 embryonic S3    63 leg disc CME L1    33 wing disc CME-W2    44 wing disc ML-DmD8    54 wing disc ML-DmD9    44 wing disc ML-DmD16-c3    57 wing disc ML-DmD21    4 wing disc ML-DmD32    34 haltere disc ML-DmD17-c3    75 eye-antennal disc ML-DmD11    53 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1    48 CNS ML-DmBG2-c2    85 tumorous blood cells mbn2    62 ovary fGS/OSS    63 ovary OSC    80 ovary OSS    33 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+    57 Schneider line 2 Sg4    19 embryonic 1182-4H    66 embryonic GM2    79 embryonic Kc167    40 embryonic S1    65 embryonic S3    63 leg disc CME L1    33 wing disc CME-W2    44 wing disc ML-DmD8    54 wing disc ML-DmD9    44 wing disc ML-DmD16-c3    57 wing disc ML-DmD21    4 wing disc ML-DmD32    34 haltere disc ML-DmD17-c3    75 eye-antennal disc ML-DmD11    53 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1    48 CNS ML-DmBG2-c2    85 tumorous blood cells mbn2    62 ovary fGS/OSS    63 ovary OSC    80 ovary OSS    33 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    57 Schneider line 2 Sg4    19 embryonic 1182-4H    66 embryonic GM2    79 embryonic Kc167    40 embryonic S1    65 embryonic S3    63 leg disc CME L1    33 wing disc CME-W2    44 wing disc ML-DmD8    54 wing disc ML-DmD9    44 wing disc ML-DmD16-c3    57 wing disc ML-DmD21    4 wing disc ML-DmD32    34 haltere disc ML-DmD17-c3    75 eye-antennal disc ML-DmD11    53 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1    48 CNS ML-DmBG2-c2    85 tumorous blood cells mbn2    62 ovary fGS/OSS    63 ovary OSC    80 ovary OSS    33 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (57) Schneider line 2 Sg4    19 embryonic 1182-4H  (66) embryonic GM2  (79) embryonic Kc167  (40) embryonic S1  (65) embryonic S3  (63) leg disc CME L1  (33) wing disc CME-W2  (44) wing disc ML-DmD8  (54) wing disc ML-DmD9  (44) wing disc ML-DmD16-c3  (57) wing disc ML-DmD21    4 wing disc ML-DmD32  (34) haltere disc ML-DmD17-c3  (75) eye-antennal disc ML-DmD11  (53) antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1  (48) CNS ML-DmBG2-c2  (85) tumorous blood cells mbn2  (62) ovary fGS/OSS  (63) ovary OSC  (80) ovary OSS  (33) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    57 Schneider line 2 Sg4    19 embryonic 1182-4H    66 embryonic GM2    79 embryonic Kc167    40 embryonic S1    65 embryonic S3    63 leg disc CME L1    33 wing disc CME-W2    44 wing disc ML-DmD8    54 wing disc ML-DmD9    44 wing disc ML-DmD16-c3    57 wing disc ML-DmD21    4 wing disc ML-DmD32    34 haltere disc ML-DmD17-c3    75 eye-antennal disc ML-DmD11    53 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1    48 CNS ML-DmBG2-c2    85 tumorous blood cells mbn2    62 ovary fGS/OSS    63 ovary OSC    80 ovary OSS    33 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+    57 Schneider line 2 Sg4    19 embryonic 1182-4H    66 embryonic GM2    79 embryonic Kc167    40 embryonic S1    65 embryonic S3    63 leg disc CME L1    33 wing disc CME-W2    44 wing disc ML-DmD8    54 wing disc ML-DmD9    44 wing disc ML-DmD16-c3    57 wing disc ML-DmD21    4 wing disc ML-DmD32    34 haltere disc ML-DmD17-c3    75 eye-antennal disc ML-DmD11    53 antennal disc ML-DmD20-c5    23 mixed discs ML-DmD4-c1    25 CNS ML-DmBG1-c1    48 CNS ML-DmBG2-c2    85 tumorous blood cells mbn2    62 ovary fGS/OSS    63 ovary OSC    80 ovary OSS    33 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    29 cold shock, 4-day adult    23 heat shock, 4-day adult    32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    35 Cadmium 100 mM 48 hrs, 4-day adult    59 Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult    41 Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult    32 Ethanol 2.5% 3 hrs, larvae L3    66 Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    49 Caffeine 25 mg/ml 48 hrs, 4-day adult    27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  (29) cold shock, 4-day adult    23 heat shock, 4-day adult  (32) Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult  (35) Cadmium 100 mM 48 hrs, 4-day adult  (59) Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult  (41) Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult  (32) Ethanol 2.5% 3 hrs, larvae L3  (66) Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (49) Caffeine 25 mg/ml 48 hrs, 4-day adult  (27) 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    29 cold shock, 4-day adult    23 heat shock, 4-day adult    32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    35 Cadmium 100 mM 48 hrs, 4-day adult    59 Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult    41 Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult    32 Ethanol 2.5% 3 hrs, larvae L3    66 Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    49 Caffeine 25 mg/ml 48 hrs, 4-day adult    27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 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    29 cold shock, 4-day adult    23 heat shock, 4-day adult    32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    35 Cadmium 100 mM 48 hrs, 4-day adult    59 Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult    41 Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult    32 Ethanol 2.5% 3 hrs, larvae L3    66 Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    49 Caffeine 25 mg/ml 48 hrs, 4-day adult    27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    29 cold shock, 4-day adult    23 heat shock, 4-day adult    32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    35 Cadmium 100 mM 48 hrs, 4-day adult    59 Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult    41 Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult    32 Ethanol 2.5% 3 hrs, larvae L3    66 Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    49 Caffeine 25 mg/ml 48 hrs, 4-day adult    27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  29 cold shock, 4-day adult    23 heat shock, 4-day adult  32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult  (35) Cadmium 100 mM 48 hrs, 4-day adult  (59) Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult  (41) Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult  32 Ethanol 2.5% 3 hrs, larvae L3  (66) Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (49) Caffeine 25 mg/ml 48 hrs, 4-day adult  27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    29 cold shock, 4-day adult    23 heat shock, 4-day adult    32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    35 Cadmium 100 mM 48 hrs, 4-day adult    59 Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult    41 Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult    32 Ethanol 2.5% 3 hrs, larvae L3    66 Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    49 Caffeine 25 mg/ml 48 hrs, 4-day adult    27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 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    29 cold shock, 4-day adult    23 heat shock, 4-day adult    32 Cadmium 50 mM 6 hrs, larvae L3    10 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    35 Cadmium 100 mM 48 hrs, 4-day adult    59 Copper 0.5 mM 12 hrs, larvae L3    12 Copper 15 mM 48 hrs, 4-day adult    41 Zinc 5 mM 12 hrs, larvae L3    11 Zinc 4.5 mM 48 hrs, 4-day adult    32 Ethanol 2.5% 3 hrs, larvae L3    66 Ethanol 5% 3 hrs, larvae L3    17 Ethanol 10% 3 hrs, larvae L3    13 Caffeine 1.5 mg/ml 4 hrs, larvae L3    24 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    49 Caffeine 25 mg/ml 48 hrs, 4-day adult    27 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    9 Rotenone 8 μg 12 hrs, larvae L3    11 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_27 mE1_20_mRNA_expression_cluster_02
External Data & Images
Linkouts	BDGP expression data • SD07194 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0085436 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • Stencil:2R:4635930:4634866:GENSCAN;CG1874-RA;Stencil:2R:4635930:4634866:GENSCAN FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Not1 Stages(s) 1-3 Stages(s) 4-6 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal Not1GD4070 lethal, with Scer\GAL4pnr-MD237 Not1GD4070 Not1GD9640 lethal | pupal stage, with Scer\GAL4pnr-MD237 Not1GD9640 Other Phenotypes Allele neuroanatomy defective | larval stage Not1GD4070 visible, with Scer\GAL4Bx-MS1096 Not1dsRNA.Scer\UAS.WIZ Not1Scer\UAS.T:Ivir\HA1 visible, with Scer\GAL4ey.PU Not1dsRNA.Scer\UAS.WIZ Phenotype manifest in Allele embryonic/larval neuroblast | larval stage Not1GD4070 eye, with Scer\GAL4ey.PU Not1dsRNA.Scer\UAS.WIZ ganglion mother cell | larval stage Not1GD4070 wing, with Scer\GAL4Bx-MS1096 Not1dsRNA.Scer\UAS.WIZ wing vein | ectopic, with Scer\GAL4Bx-MS1096 Not1Scer\UAS.T:Ivir\HA1
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of Not1 Class Mutagen Stocks Known lesion Not1CB-0865-3 1 -- Not1G5743 P-element activity 1 -- Not1MI07631 1 --
Alleles Carried on Transgenic Constructs ( 10 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Not1 Class Mutagen Stocks Known lesion Not1GD9640 in vitro construct - RNAi in vitro construct - regulatory fusion 3 Yes Not1GD4070 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Not1HMS00526 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Not1JF01135 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Not1JF03096 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Not1KK100090 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Not1dsRNA.cTa in vitro construct - RNAi 0 Yes Not1dsRNA.Scer\UAS.WIZ in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes Not1NIG.1884R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes Not1Scer\UAS.T:Ivir\HA1 in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)Exel8049 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4070} NA P{GD9640} NA P{KK100090} NA P{NIG.1884R} NA P{TRiP.HMS00526} NA P{TRiP.JF01135} NA P{TRiP.JF03096} NA P{UAS-Not1.HA} NA P{UAS-sco.WIZ} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions Mi{MIC}Not1MI07631 NA P{RS3}Not1CB-0865-3 NA insertion of mobile activating element P{EP}Not1G5743 NA P{EPgy2}CG1814EY04465 NA
Gene Ontology: Function, Process & Cellular Component ( 8 unique terms )
Terms Based on Experimental Evidence ( 8 terms )
Molecular Function
CV term Evidence References
protein binding inferred from physical interaction with UniProtKB:Q8SY33 (assigned by UniProtKB) (Braun et al., 2011)
Biological Process
CV term Evidence References
dendrite morphogenesis inferred from mutant phenotype (Parrish et al., 2006) mitotic G2 DNA damage checkpoint inferred from genetic interaction with nbs (Kondo and Perrimon, 2011) muscle organ development inferred from mutant phenotype (Parrish et al., 2006) neurogenesis inferred from mutant phenotype (Neumüller et al., 2011) nuclear-transcribed mRNA poly(A) tail shortening inferred from mutant phenotype (Temme et al., 2010)
Cellular Component
CV term Evidence References
CCR4-NOT complex inferred from direct assay (Temme et al., 2010) cytoplasm inferred from direct assay (Temme et al., 2010)
Terms Based on Predictions or Assertions ( 0 terms )
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Not1 - Pop2 anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based (Mintseris et al., 2009.11.23, Guruharsha et al., 2011) Not1 - Rga experimental knowledge based (Guruharsha et al., 2011) Not1 - gw anti tag coimmunoprecipitation, anti tag western blot, anti bait coimmunoprecipitation, western blot (Braun et al., 2011) Not1 - l(2)NC136 experimental knowledge based (Guruharsha et al., 2011) Not1 - twin experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting (Guruharsha et al., 2011, 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 Not1 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 624883 DroID - A comprehensive database of gene and protein interactions. • FBgn0085436 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 5740252
Orthologs
OrthoDB Orthologs (44) - 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 EOG6ZW5WB, EOG6HMJWN Dipteran inclusive ortholog search EOG6XWG5Q Insect inclusive ortholog search EOG6Z61HC Arthropod inclusive ortholog search EOG6KKWHR Metazoa inclusive ortholog search EOG6RC3B7, EOG6KM9XJ
Orthologs in Drosophila Species (EOG6ZW5WB, EOG6HMJWN)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Not1     Drosophila simulans   Dsim\GD10070     Drosophila sechellia   Dsec\GM20597     Drosophila erecta   Dere\GG25279     Drosophila yakuba   Dyak\GE22247     Drosophila ananassae   Dana\GF12498     Drosophila pseudoobscura pseudoobscura   Dpse\GA30445     Drosophila persimilis   Dper\GL26622     Drosophila persimilis   Dper\GL17311     Drosophila willistoni   Dwil\GK21492     Drosophila virilis   Dvir\GJ15030     Drosophila mojavensis   Dmoj\GI19666     Drosophila grimshawi   Dgri\GH21959
Orthologs in non-Drosophila Dipterans (EOG6XWG5Q)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL013767   Aedes aegypti Yellow fever mosquito  Aaeg\AAEL007326   Anopheles gambiae Malaria mosquito  Agam\AGAP009057   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ007821
Orthologs in non-Dipteran Insects (EOG6Z61HC)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\CNOT1   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG021009   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH22497   Atta cephalotes Leafcutter ant  Acep\ACEP10610   Camponotus floridanus Florida carpenter ant  Cflo\CFLO15664   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL21885   Linepithema humile Argentine ant  Lhum\LH12786   Pogonomyrmex barbatus Red harvester ant  Pbar\PB22585   Solenopsis invicta Red fire ant  Sinv\SINV10644   Acyrthosiphon pisum Pea aphid  Apim\ACYPI000441   Acyrthosiphon pisum Pea aphid  Apim\ACYPI067726   Bombyx mori Silkmoth  Bmor\BGIBMGA012230   Pediculus humanus Human body louse  Phum\PHUM564470   Tribolium castaneum Red flour beetle  Tcas\TC003500
Orthologs in non-Insect Arthropods (EOG6KKWHR)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_324499   Ixodes scapularis Deer tick  Isca\ISCW022114
Orthologs in non-Arthropod Metazoa (EOG6RC3B7, EOG6KM9XJ)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\let-711   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_028421gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_004821gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_003253gn   Danio rerio Zebrafish  Drer\cnot1   Xenopus tropicalis Western clawed frog  Xtro\cnot1   Gallus gallus Domestic chicken  Ggal\CNOT1   Mus musculus House mouse  Mmus\Gm6158   Mus musculus House mouse  Mmus\ENSMUSG00000036550   Rattus norvegicus Norway rat  Rnor\Cnot1   Homo sapiens Human  Hsap\CNOT1
Human Orthologs (1)
Gene OMIM HGNC Hsap\CNOT1
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 12 )
Bloomington	28681 y1 v1; P{TRiP.JF03096}attP2 31696 y1 v1; P{TRiP.JF01135}attP2 44201 y1 w*; Mi{MIC}Not1MI07631/SM6a 32836 y1 sc* v1; P{TRiP.HMS00526}attP2 27186 y1 w*; P{EP}Not1G5743 CG1814G5743
Kyoto	123349 w1118; P{RS3}Not1CB-0865-3
VDRC	v106587 P{KK100090}VIE-260B v12571 w1118; P{GD4070}v12571 v13740 w1118; P{GD4070}v13740 v41680 w1118; P{GD9640}v41680 v41681 w1118; P{GD9640}v41681/TM3 v45463 w1118; P{GD9640}v45463/CyO
Genomic Clones ( 2 )
	BACR14J24 BACR48G21 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 106 )
	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	GH26494 LD42146 SD07194
Other clones	MIP03068
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT01101 AT23282 GH24190 GM03516 GM09107 GM31258 GM32419 HL07904 LD07251 LD10122 LD12228 LD13323 LD24310 LD28557 LD45446 LD46541 LP04481 LP05213 LP08154 LP17390 LP19816 SD04419 SD04520 SD05173 SD08233 SD08795 SD13338
Other clones	14889 28609 35368 57181 61076 70618 83446 97301 97400 101402 106776 108443 121465 146331 147572 165514 190347 192438 194846 214343.49 214415.46 214471.38 291355 525497 AI124264 AM02254 CK01.26C.B8 CK01.29C.E11 CK01.85B.C3 CK01.114B.F11 Dmel_dig_009553_0712_1848 Dmel_dig_019145_0664_1729 Dmel_dig_020993_0708_2495 Dmel_neb_002548_0414_3576 Dmel_neb_015381_0909_2136 EC32341 EK023240 EK026020 EK067510 EK109405 EK134006 EK146134 EK163664 EK166062 EK177819 EK186062 EK217416 EK219950 EK248763 EK253152 EK270011 EK292851 EN05513 EN06613 EP04060 EP08821 EP18115 ESG012c.E21_E10 ESG0111c.B21.1_E09 FGH126B11 FGM207B02 FGM214E02 FGM228A03 FGM310A12 IP15244 IP15457 IP15557 LD21253 LD45240 RP004182389 RP004256970 SD02024 SD09612 UUGC0156 UUGC0853
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0085436 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 5740252
Antibody Information
	monoclonal (Temme et al., 2010) polyclonal (Temme et al., 2010)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: CG1884 Not1 (Semotok et al., 2005)
Source for database merge of	Source for merge of: CG1884 anon-EST:Liang-1.29 (FlyBase, 1996-) Source for merge of: CG1884 anon-WO0118547.221 (FlyBase, 1996-) Source for merge of: Not1 CG1874 (FlyBase Genome Annotators, 2007)
Additional comments	Annotations CG1884 and CG1874 merged as CG34407 in release 5.2 of the genome annotation. (FlyBase Genome Annotators, 2007) Source for merge of CG1884 anon-WO0118547.221 was sequence comparison (date:051113). (FlyBase, 1996-) Source for merge of CG1884 anon-EST:Liang-1.29 was sequence comparison (date:030722). (FlyBase, 1996-)
Other Comments
	dsRNA made from templates generated with primers directed against this gene are used to study its function. (Behm-Ansmant et al., 2006) dsRNA has been made from templates generated with primers directed against this gene. RNAi of Not1 results in dorsal overextension of primary dendrites and a reduction in lateral branching. RNAi also causes defects in muscle and defects in dendrite morphogenesis. (Parrish et al., 2006) Identified as a potential component of the hh signalling pathway in a genome-wide RNAi screen. dsRNA made from templates generated with primers directed affects the extent of expression of a hh signaling reporter construct in Clone 8 cells. (Nybakken et al., 2005) Area matching Drosophila EST AA699194. (Davies, 2001.3.15)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_165678 NM_001103772 NM_001103773 NM_001103774 NM_001169628 RefSeq (Proteins) • NP_724798 NP_001097242 NP_001097243 NP_001097244 NP_001163099 DDBJ / EMBL / GenBank • AA699194 AAF58926 AAL14011 AAM71069 AAN71201 ABV53739 ABV53740 ABV53741 AI124264 AI406258 AI516316 AI534388 AW943599 AW944487 AX094097 AY058782 AY075421 BT001446 CX309440 CX309502 Entrez Gene - A searchable database of RefSeq genes. • 5740252 UniProtKB/TrEMBL • A8DY80 A8DY81 A8DY82 E2QCN4 Q8IH39 Q95TG6
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • CCR4-Not complex component, Not1, C-terminal (IPR007196) CCR4-Not complex, Not1 subunit, domain of unknown function DUF3819 (IPR024557) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • SD07194
Linkouts
	BioGRID - A database of protein and genetic interactions • 624883 DroID - A comprehensive database of gene and protein interactions. • FBgn0085436 DRSC - Results from RNAi screens. • FBgn0085436 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0085436 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • Stencil:2R:4635930:4634866:GENSCAN;CG1874-RA;Stencil:2R:4635930:4634866:GENSCAN FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0085436 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 5740252 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 5740252 modMine - Data generated by the modENCODE project. • FBgn0085436
Synonyms & Secondary IDs ( 11 )
Reported As
Symbol Synonym	anon-EST:Liang-1.29   anon-WO0118547.221   CG1874 (Nybakken et al., 2005, Zhou et al., 2008) CG1884 (Davies et al., 2001, Parrish et al., 2006, Bjorklund et al., 2006, Yandell et al., 2005, FlyBase, 1996-, Perkins et al., 2009, Yano et al., 2012) CG34407 (FlyBase Genome Annotators, 2007, Keleman et al., 2009.8.5, Ni et al., 2008, Ni et al., 2010.12.1) clone 1.29 (Liang and Biggin, 1998) NOT (Seydoux and Braun, 2006) NOT1 (Semotok et al., 2005, Temme et al., 2004, Zekri et al., 2009, Eulalio et al., 2009, Eulalio et al., 2007, Behm-Ansmant et al., 2006, Temme et al., 2010, Kondo and Perrimon, 2011) Not1 (Temme et al., 2010, Wasbrough et al., 2010, Friedman et al., 2011, Neumüller et al., 2011, Yano et al., 2012, Japanese National Institute of Genetics, 2012.5.21) not1 (Neely et al., 2010) unnamed (Yandell et al., 2005)
Name Synonym	CG1874   Not1
Secondary FlyBase IDs
	FBgn0026000 FBgn0033424 FBgn0033425 FBgn0062162
References ( 53 )
Generate a list of	All references relating to this gene ( 53 )
List References by type	Research paper  ( 24 ) Supplementary material  ( 9 ) Review  ( 1 ) Personal communication to FlyBase  ( 11 ) FlyBase analysis  ( 4 ) Patent  ( 1 ) Stock list  ( 1 ) DNA/RNA sequence record  ( 1 ) Website  ( 1 )
Recent research papers ( 9 )
	Huntzinger et al., 2013, Nucleic Acids Res. 41(2): 978--994 The interactions of GW182 proteins with PABP and deadenylases are required for both translational repression and degradation of miRNA targets. [FBrf0220586] Staller et al., 2013, Genetics 193(1): 51--61 Depleting Gene Activities in Early Drosophila Embryos with the "Maternal-Gal4-shRNA" System. [FBrf0220341] Fukaya and Tomari, 2012, Mol. Cell 48(6): 825--836 MicroRNAs Mediate Gene Silencing via Multiple Different Pathways in Drosophila. [FBrf0220346] Yano et al., 2012, J. Neurogenet. 26(1): 53--63 Identification of proteasome components required for apical localization of chaoptin using functional genomics. [FBrf0217843] Braun et al., 2011, Mol. Cell 44(1): 120--133 GW182 proteins directly recruit cytoplasmic deadenylase complexes to miRNA targets. [FBrf0216988] Friedman et al., 2011, Sci. Signal. 4(196): rs10 Proteomic and functional genomic landscape of receptor tyrosine kinase and ras to extracellular signal-regulated kinase signaling. [FBrf0216513] Igreja and Izaurralde, 2011, Genes Dev. 25(18): 1955--1967 CUP promotes deadenylation and inhibits decapping of mRNA targets. [FBrf0216681] Kondo and Perrimon, 2011, Sci. Signal. 4(154): rs1 A Genome-Wide RNAi Screen Identifies Core Components of the G2-M DNA Damage Checkpoint. [FBrf0212700] Neumüller et al., 2011, Cell Stem Cell 8(5): 580--593 Genome-Wide Analysis of Self-Renewal in Drosophila Neural Stem Cells by Transgenic RNAi. [FBrf0213621] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...