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Gene Dmel\Ndc1

General Information
Symbol	Dmel\Ndc1	Species	D. melanogaster
Name	Ndc1 ortholog (S. cerevisiae)	Annotation symbol	CG5857
Feature type	protein_coding_gene	FlyBase ID	FBgn0039125
Gene Model Status	Current	Stock availability	4 publicly available
Also Known As	NDC1
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	95C12-95C13	Sequence location	3R:19,750,121..19,752,158 [+]
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 Ndc1 ortholog (S. cerevisiae) is referred to in FlyBase by the symbol Dmel\Ndc1 (CG5857, FBgn0039125). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: structural constituent of nuclear pore. There is experimental evidence that it is involved in the biological process: neurogenesis. 3 alleles are reported. The phenotypes of these alleles are annotated with: trichogen cell; tormogen cell. It has one annotated transcript and one annotated polypeptide. Protein features are: Nucleoporin protein Ndc1-Nup. 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 00-12 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 fat body, larval salivary gland, larval trachea, adult female reproductive system, adult male reproductive system, larval carcass. Comments on Affy2 ProbeSet: ProbeSet 1623498_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG5857. Gene sequence location is 3R:19750121..19752158.
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.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
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 95C12-95C13   Limits computationally determined from genome sequence between P{PZ}l(3)0468404684 and P{PZ}Atg600096
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\Ndc1 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 5.39 Gene model reviewed during 5.45 Gene model reviewed during 5.47
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Ndc1-RA FBtr0084491  NM_142934   1978   578
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 Ndc1-PA   FBpp0083879   65.4   578   8.42     NP_651191   AAF56202
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Nucleoporin protein Ndc1-Nup (IPR019049)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA949261   AA951612   AE014297 AAF56202   AI456552   AI516453   AI517839   AI542057   AW943612   AY061468 AAL29016   BF489694   CO192220   CO286802   CO306685   CO342111   CO344405   DQ141697 AAZ73088   EC051827   EC052351   EC053822   EC054325   EC055837   EC079609   EC218342   EC244497   EC250597   EC253516   EC253894   GH944998   GH946407   GH950247   GH951438   GH953394   GH955710   GH956313   GH956403   GH956557   GH959957   GH962683   GH965147   GH965476   GH970675   GH981799   GH982320   GH983512   GH984089
UniProtKB/Swiss-Prot	Q9VCG4
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
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   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   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
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 fat body, larval salivary gland, larval trachea, adult female reproductive system, adult male reproductive system, larval carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    236.775 Larval Midgut    77.1 Larval Hindgut    94.8 Larval Malpighian Tubules    92.4 Larval Fat Body    101.6 Larval Salivary Gland    138.3 Larval Trachea    135.625 Larval Carcass    109.875 Adult Head    50.3 Adult Eye    61.225 Adult Brain    42 Adult Thoracic-Abdominal Ganglion    46.5 Adult Crop    90.3 Adult Midgut    86.1 Adult Hindgut    80.4 Adult Malpighian Tubules    88.3 Adult Fat Body    82.4 Adult Salivary Gland    119.2 Adult Heart    57.075 Adult VirginFemale Spermatheca    86.9 Adult InseminatedFemale Spermatheca    103.2 Adult Ovary    267.8 Adult Testis    177.9 Adult Male Accessory Gland    194.1 Adult Carcass    70.2 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    50.3   NA  Eye    61.225   NA  Brain    42   236.775  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    46.5   NA  Crop    90.3   77.1  Midgut    86.1   94.8  Hindgut    80.4   92.4  Malpighian Tubules    88.3   101.6  Fat Body    82.4   138.3  Salivary Gland    no informative data   NA  Heart    57.075   135.625  Trachea    NA   NA  VirginFemale Spermatheca    86.9   NA  InseminatedFemale Spermatheca    103.2   NA  Ovary    267.8   NA  Testis    177.9   NA  Male Accessory Gland    194.1   109.875  Carcass    70.2 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    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female    33 ovary, mated 4-day female    28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female  (33) ovary, mated 4-day female  (28) testis, mated 4-day male    12 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female    33 ovary, mated 4-day female    28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 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    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female    33 ovary, mated 4-day female    28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female    33 ovary, mated 4-day female    28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female  (33) ovary, mated 4-day female  28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female    33 ovary, mated 4-day female    28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 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    14 central nervous system, larvae L3    10 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    3 head, mated 1-day female    2 head, mated 4-day female    2 head, mated 20-day female    2 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    4 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    2 digestive system, 4-day adult    4 digestive system, 20-day adult    4 fat body, larvae L3 wandering    1 fat body, white prepupae    4 fat body, pupae P8    4 carcass, larvae L3 wandering    9 carcass, 1-day adult    2 carcass, 4-day adult    3 carcass, 20-day adult    3 ovary, virgin 4-day female    33 ovary, mated 4-day female    28 testis, mated 4-day male    12 accessory gland, mated 4-day male    3 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 00-12 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    79 embryo 02-04hr    48 embryo 04-06hr    73 embryo 06-08hr    56 embryo 08-10hr    44 embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day    27 adult female 05day    40 adult female 30day    42 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (79) embryo 02-04hr  (48) embryo 04-06hr  (73) embryo 06-08hr  (56) embryo 08-10hr  (44) embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day  (27) adult female 05day  (40) adult female 30day  (42) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    79 embryo 02-04hr    48 embryo 04-06hr    73 embryo 06-08hr    56 embryo 08-10hr    44 embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day    27 adult female 05day    40 adult female 30day    42 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    79 embryo 02-04hr    48 embryo 04-06hr    73 embryo 06-08hr    56 embryo 08-10hr    44 embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day    27 adult female 05day    40 adult female 30day    42 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    79 embryo 02-04hr    48 embryo 04-06hr    73 embryo 06-08hr    56 embryo 08-10hr    44 embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day    27 adult female 05day    40 adult female 30day    42 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (79) embryo 02-04hr  (48) embryo 04-06hr  (73) embryo 06-08hr  (56) embryo 08-10hr  (44) embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day  27 adult female 05day  (40) adult female 30day  (42) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    79 embryo 02-04hr    48 embryo 04-06hr    73 embryo 06-08hr    56 embryo 08-10hr    44 embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day    27 adult female 05day    40 adult female 30day    42 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    79 embryo 02-04hr    48 embryo 04-06hr    73 embryo 06-08hr    56 embryo 08-10hr    44 embryo 10-12hr    18 embryo 12-14hr    10 embryo 14-16hr    8 embryo 16-18hr    5 embryo 18-20hr    4 embryo 20-22hr    6 embryo 22-24hr    6 larva L1    17 larva L2    14 larva L3 12hr old    10 larva L3 puffstage 1-2    11 larva L3 puffstage 3-6    16 larva L3 puffstage 7-9    18 white prepupae new    16 white prepupae 12hr    23 white prepupae 24hr    21 pupae 2d postWPP    14 pupae 3d postWPP    11 pupae 4d postWPP    13 adult male 01day    17 adult male 05day    22 adult male 30day    25 adult female 01day    27 adult female 05day    40 adult female 30day    42 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+    46 Schneider line 2 Sg4    37 embryonic 1182-4H    28 embryonic GM2    17 embryonic Kc167    28 embryonic S1    20 embryonic S3    29 leg disc CME L1    35 wing disc CME-W2    37 wing disc ML-DmD8    30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3    30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3    35 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    28 mixed discs ML-DmD4-c1    30 CNS ML-DmBG1-c1    28 CNS ML-DmBG2-c2    32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (46) Schneider line 2 Sg4  (37) embryonic 1182-4H  (28) embryonic GM2    17 embryonic Kc167  (28) embryonic S1    20 embryonic S3  (29) leg disc CME L1  (35) wing disc CME-W2  (37) wing disc ML-DmD8  (30) wing disc ML-DmD9    24 wing disc ML-DmD16-c3  (30) wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3  (35) eye-antennal disc ML-DmD11  (29) antennal disc ML-DmD20-c5  (28) mixed discs ML-DmD4-c1  (30) CNS ML-DmBG1-c1  (28) CNS ML-DmBG2-c2  (32) tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    37 embryonic 1182-4H    28 embryonic GM2    17 embryonic Kc167    28 embryonic S1    20 embryonic S3    29 leg disc CME L1    35 wing disc CME-W2    37 wing disc ML-DmD8    30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3    30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3    35 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    28 mixed discs ML-DmD4-c1    30 CNS ML-DmBG1-c1    28 CNS ML-DmBG2-c2    32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 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+    46 Schneider line 2 Sg4    37 embryonic 1182-4H    28 embryonic GM2    17 embryonic Kc167    28 embryonic S1    20 embryonic S3    29 leg disc CME L1    35 wing disc CME-W2    37 wing disc ML-DmD8    30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3    30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3    35 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    28 mixed discs ML-DmD4-c1    30 CNS ML-DmBG1-c1    28 CNS ML-DmBG2-c2    32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    37 embryonic 1182-4H    28 embryonic GM2    17 embryonic Kc167    28 embryonic S1    20 embryonic S3    29 leg disc CME L1    35 wing disc CME-W2    37 wing disc ML-DmD8    30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3    30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3    35 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    28 mixed discs ML-DmD4-c1    30 CNS ML-DmBG1-c1    28 CNS ML-DmBG2-c2    32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (46) Schneider line 2 Sg4  (37) embryonic 1182-4H  28 embryonic GM2    17 embryonic Kc167  28 embryonic S1    20 embryonic S3  29 leg disc CME L1  (35) wing disc CME-W2  (37) wing disc ML-DmD8  30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3  30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3  (35) eye-antennal disc ML-DmD11  29 antennal disc ML-DmD20-c5  28 mixed discs ML-DmD4-c1  30 CNS ML-DmBG1-c1  28 CNS ML-DmBG2-c2  32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    37 embryonic 1182-4H    28 embryonic GM2    17 embryonic Kc167    28 embryonic S1    20 embryonic S3    29 leg disc CME L1    35 wing disc CME-W2    37 wing disc ML-DmD8    30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3    30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3    35 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    28 mixed discs ML-DmD4-c1    30 CNS ML-DmBG1-c1    28 CNS ML-DmBG2-c2    32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 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+    46 Schneider line 2 Sg4    37 embryonic 1182-4H    28 embryonic GM2    17 embryonic Kc167    28 embryonic S1    20 embryonic S3    29 leg disc CME L1    35 wing disc CME-W2    37 wing disc ML-DmD8    30 wing disc ML-DmD9    24 wing disc ML-DmD16-c3    30 wing disc ML-DmD21    22 wing disc ML-DmD32    15 haltere disc ML-DmD17-c3    35 eye-antennal disc ML-DmD11    29 antennal disc ML-DmD20-c5    28 mixed discs ML-DmD4-c1    30 CNS ML-DmBG1-c1    28 CNS ML-DmBG2-c2    32 tumorous blood cells mbn2    17 ovary fGS/OSS    18 ovary OSC    10 ovary OSS    11 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    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3  (29) Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 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    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3  29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 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    6 cold shock, 4-day adult    3 heat shock, 4-day adult    11 Cadmium 50 mM 6 hrs, larvae L3    4 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    11 Cadmium 100 mM 48 hrs, 4-day adult    18 Copper 0.5 mM 12 hrs, larvae L3    2 Copper 15 mM 48 hrs, 4-day adult    7 Zinc 5 mM 12 hrs, larvae L3    1 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    29 Ethanol 5% 3 hrs, larvae L3    5 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    16 Caffeine 25 mg/ml 48 hrs, 4-day adult    7 Paraquat 5 mM 48 hrs, 4-day adult    19 Paraquat 10 mM 48 hrs, 4-day adult    17 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    6 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_09
External Data & Images
Linkouts	BDGP expression data • LD42327 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0039125 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG5857-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal Ndc1GD217 viable, with Scer\GAL4pnr-MD237 Ndc1GD217 Other Phenotypes Allele neuroanatomy defective | larval stage Ndc1GD217 visible, with Scer\GAL4pnr-MD237 Ndc1GD217 Phenotype manifest in Allele chaeta | supernumerary, with Scer\GAL4pnr-MD237 Ndc1GD217 embryonic/larval neuroblast | larval stage Ndc1GD217 ganglion mother cell | larval stage Ndc1GD217 tormogen cell, with Scer\GAL4pnr-MD237 Ndc1GD217 trichogen cell, with Scer\GAL4pnr-MD237 Ndc1GD217 trichogen cell | supernumerary, with Scer\GAL4pnr-MD237 Ndc1GD217
Classical Alleles ( 1 )
For All Classical Alleles Show
Allele of Ndc1 Class Mutagen Stocks Known lesion Ndc1G19293 P-element activity 1 --
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Ndc1 Class Mutagen Stocks Known lesion Ndc1GD217 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Ndc1KK105579 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Disrupted in	Df(3R)Exel6196 (Ryder, 2004.4.26) Df(3R)Exel9014 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}Ndc1G19293 NA P{EPgy2}EY02646 NA
Gene Ontology: Function, Process & Cellular Component ( 4 unique terms )
Terms Based on Experimental Evidence ( 1 term )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
neurogenesis inferred from mutant phenotype (Neumüller et al., 2011)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
structural constituent of nuclear pore inferred from sequence or structural similarity with human TMEM48 (Lau et al., 2006)
Biological Process
CV term Evidence References
nuclear pore complex assembly inferred from sequence or structural similarity with human TMEM48 (Lau et al., 2006)
Cellular Component
CV term Evidence References
nuclear pore inferred from sequence or structural similarity with human TMEM48 (Lau et al., 2006)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
Ndc1 - ATPsyn-Cf6 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - CG15220 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - CG16753 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - CG18081 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - CG3817 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - Elongin-B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - ImpL3 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - ens anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) Ndc1 - mTerf3 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 Ndc1 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 67761 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0039125 DroID - A comprehensive database of gene and protein interactions. • FBgn0039125 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 42825
Orthologs
OrthoDB Orthologs (38) - 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 EOG6PRT9F Dipteran inclusive ortholog search EOG65X84J Insect inclusive ortholog search EOG6B8H89 Arthropod inclusive ortholog search EOG6P5HRC Metazoa inclusive ortholog search EOG6XWTR0
Orthologs in Drosophila Species (EOG6PRT9F)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Ndc1     Drosophila simulans   Dsim\GD21044 Y   Drosophila sechellia   Dsec\GM26536 Y   Drosophila erecta   Dere\GG11235 Y   Drosophila yakuba   Dyak\GE10401 Y   Drosophila ananassae   Dana\GF17021 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA19183 Y   Drosophila persimilis   Dper\GL24200 Y   Drosophila willistoni   Dwil\GK22549 Y   Drosophila virilis   Dvir\GJ24406 Y   Drosophila mojavensis   Dmoj\GI22372 Y   Drosophila grimshawi   Dgri\GH13245 Y
Orthologs in non-Drosophila Dipterans (EOG65X84J)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL004877   Anopheles gambiae Malaria mosquito  Agam\AGAP004558   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ005362
Orthologs in non-Dipteran Insects (EOG6B8H89)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB50427   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG010915   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH21602   Atta cephalotes Leafcutter ant  Acep\ACEP16198   Camponotus floridanus Florida carpenter ant  Cflo\CFLO20205   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL19464   Linepithema humile Argentine ant  Lhum\LH19362   Pogonomyrmex barbatus Red harvester ant  Pbar\PB25046   Solenopsis invicta Red fire ant  Sinv\SINV25529   Acyrthosiphon pisum Pea aphid  Apim\ACYPI41344   Bombyx mori Silkmoth  Bmor\BGIBMGA006509   Pediculus humanus Human body louse  Phum\PHUM529460   Tribolium castaneum Red flour beetle  Tcas\TC000485
Orthologs in non-Insect Arthropods (EOG6P5HRC)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Ixodes scapularis Deer tick  Isca\ISCW008431
Orthologs in non-Arthropod Metazoa (EOG6XWTR0)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\npp-22 Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_026693gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_007610gn Y Danio rerio Zebrafish  Drer\tmem48 Y Xenopus tropicalis Western clawed frog  Xtro\tmem48 Y Gallus gallus Domestic chicken  Ggal\TMEM48 Y Mus musculus House mouse  Mmus\Tmem48 Y Rattus norvegicus Norway rat  Rnor\Tmem48 Y Homo sapiens Human  Hsap\TMEM48 Y
Human Orthologs (1)
Gene OMIM HGNC Hsap\TMEM48
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD21044 Drosophila sechellia Dsec\GM26536 Drosophila erecta Dere\GG11235 Drosophila yakuba Dyak\GE10401 Drosophila ananassae Dana\GF17021 Drosophila pseudoobscura pseudoobscura Dpse\GA19183 Drosophila persimilis Dper\GL24200 Drosophila willistoni Dwil\GK22549 Drosophila virilis Dvir\GJ24406 Drosophila mojavensis Dmoj\GI22372 Drosophila grimshawi Dgri\GH13245
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Bloomington	31850 w1118; P{EP}Ndc1G19293/TM6C, Sb1
VDRC	v101264 P{KK105579}VIE-260B v3408 w1118; P{GD217}v3408 v2651 w1118; P{GD217}v2651/CyO
Genomic Clones ( 1 )
	BACR05C11 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 42 )
	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	LD42327
Other clones	DPiM_LD42327
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT25817 LD28086 LD32236 LD36609 LD42915 SD08121
Other clones	17985 182853 214217.17 214307.13 CK01.61B.D3 CK01.112C.F11 EC33374 EC051827 EC052351 EC053822 EC054325 EC055837 EK063914 EK251906 EP13851 EP19222 RP004076150 RP004079908 RP004081904 RP004091819 RP004129717 RP004161090 RP004172667 RP004202425 RP004208369 RP004220700 RP004222106 RP004227586 RP004236473 RP004424305 RP004490789 RP004495126 RP004523733 RP004550317
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0039125 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 42825
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Ndc1 CG5857 (Lau et al., 2006)
Source for database merge of
Additional comments
Other Comments
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_142934 RefSeq (Proteins) • NP_651191 DDBJ / EMBL / GenBank • AAF56202 AAL29016 AAZ73088 AI516453 AW943612 AY061468 DQ141697 Entrez Gene - A searchable database of RefSeq genes. • 42825 UniProtKB/Swiss-Prot • Q9VCG4
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Nucleoporin protein Ndc1-Nup (IPR019049) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD42327
Linkouts
	BioGRID - A database of protein and genetic interactions • 67761 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0039125 DroID - A comprehensive database of gene and protein interactions. • FBgn0039125 DRSC - Results from RNAi screens. • FBgn0039125 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0039125 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG5857-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0039125 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 42825 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 42825 modMine - Data generated by the modENCODE project. • FBgn0039125
Synonyms & Secondary IDs ( 4 )
Reported As
Symbol Synonym	CG5857 (Keleman et al., 2009.8.5, Kallappagoudar et al., 2010) Ndc1 (Neumann et al., 2010) NDC1 (Lau et al., 2006)
Name Synonym	Ndc1 ortholog (S. cerevisiae)
Secondary FlyBase IDs
References ( 17 )
Research paper	Kallappagoudar et al., 2010, Mol. Cell. Proteomics 9(9): 2005--2018 Nuclear Matrix Proteome Analysis of Drosophila melanogaster. [FBrf0211714] Neumann et al., 2010, PLoS ONE 5(10): e13241 Comparative genomic evidence for a complete nuclear pore complex in the last eukaryotic common ancestor. [FBrf0220062] Lau et al., 2006, Anat. Rec. A. Discov. Molec. Cell. Evol. Biol. 288(7): 681--694 Topology of yeast Ndc1p: Predictions for the human NDC1/NET3 homologue. [FBrf0220061] Labourier et al., 2002, Genes Dev. 16(1): 72--84 The KH-type RNA-binding protein PSI is required for Drosophila viability, male fertility, and cellular mRNA processing. [FBrf0141540]
Supplementary material	Graveley et al., 2011, Nature 471(7339): Supplementary Table 33. Fuzzy Cluster Members. [FBrf0213980] Neumüller et al., 2011, Cell Stem Cell 8(5): Supplemental Table S1. [FBrf0214431] The modENCODE Consortium, 2010, Science 330(6012): DataS14: Gene co-expression clusters. [FBrf0213979] Mummery-Widmer et al., 2009, Nature 458(7241): Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518] Giot et al., 2003, Science 302(5651): Tables S1 to S7. [FBrf0166452]
Personal communication to FlyBase	Bellen, 2010.7.14, BDGP_2010_0715.GenExel.xml BDGP_2010_0715.GenExel.xml [FBrf0211255] Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510] Mintseris et al., 2009.11.23, DPiM: the Drosophila Protein Interaction Mapping project DPiM: the Drosophila Protein Interaction Mapping project [FBrf0209452] Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327] Ryder, 2004.4.26, Exelixis CG deletion data. Exelixis CG deletion data. [FBrf0184335] Gene Disruption Project members, 2001-, (Computer file) (Computer file) [FBrf0132177] BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. (Computer file) Berkeley Drosophila Genome Project. (Computer file) [FBrf0125078]
Website	Fisher et al., 2012, BDGP insitu homepage BDGP insitu homepage [FBrf0219073]