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Gene Dmel\Cap-D3

General Information
Symbol	Dmel\Cap-D3	Species	D. melanogaster
Name	Chromosome associated protein D3	Annotation symbol	CG31989
Feature type	protein_coding_gene	FlyBase ID	FBgn0051989
Gene Model Status	Current	Stock availability	10 publicly available
Also Known As	dCap-D3
Genomic Location
Chromosome (arm)	2L	Recombination map
Cytogenetic map	25E5-25E5	Sequence location	2L:5,525,905..5,537,108 [+]
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 Chromosome associated protein D3 is referred to in FlyBase by the symbol Dmel\Cap-D3 (CG31989, FBgn0051989). It is a protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. There is experimental evidence that it is involved in the biological process: meiotic anaphase I; meiotic anaphase II; male meiosis chromosome segregation; prophase; chromosome organization; meiotic cell cycle. 10 alleles are reported. The phenotypes of these alleles are annotated with: trichogen cell; primary spermatocyte in meiotic anaphase I; primary spermatocyte in meiotic prophase I. It has 3 annotated transcripts and 3 annotated polypeptides. Protein features are: Armadillo-like helical; Armadillo-type fold; Condensin subunit 1/Condensin-2 complex subunit D3. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed within 00-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: No expression detected in any larval or adult organs/tissues. Comments on Affy2 ProbeSet: ProbeSet 1624868_at completely aligns to an exonic region of only a subset of 1 of the 3 FlyBase-annotated transcript isoforms of Cap-D3. Gene sequence location is 2L:5525905..5537108.
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 25E5-25E5   Limits computationally determined from genome sequence between P{lacW}vrik05901&P{PZ}cype03771 and P{lacW}Hel25Ek11511
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\Cap-D3 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Cap-D3-RA FBtr0079097  NM_135091   5199   1267 Cap-D3-RB FBtr0301318  NM_001169416   4049   1267 Cap-D3-RC FBtr0301319  NM_001169417   3260   1001
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 Cap-D3-PA   FBpp0078730   145.2   1267   6.60     NP_608935   AAF52258 Cap-D3-PB   FBpp0290533   145.2   1267   6.60     NP_001162887   ACZ94178 Cap-D3-PC   FBpp0290534   114.3   1001   7.45     NP_001162888   ACZ94179
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Armadillo-type fold (IPR016024) Condensin subunit 1/Condensin-2 complex subunit D3 (IPR026971) Armadillo-like helical (IPR011989)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014134 AAF52258   AE014134 ACZ94178   AE014134 ACZ94179   AY075462 AAL68275   AY118684 AAM50544   BF497492   BI213051   BI234211   BI482256   BI580616   BI636608   BP554581   BP554582   BT001748 AAN71503   BZ665506   CZ471223   EV580187   GH739571
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9VMQ4 E1JHU8 Q8MSN8 Q8SY09 Q8IGJ9
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 | faint & ubiquitous   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | faint & ubiquitous   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 13 -- 16   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
nucleus inferred from direct assay (Longworth et al., 2012)
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) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  None   Low  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  None   Low  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    7.175 Larval Midgut    3.8 Larval Hindgut    0.4 Larval Malpighian Tubules    1.8 Larval Fat Body    8.8 Larval Salivary Gland    2.9 Larval Trachea    2 Larval Carcass    3.175 Adult Head    6.5 Adult Eye    6.475 Adult Brain    9.1 Adult Thoracic-Abdominal Ganglion    9.8 Adult Crop    3.8 Adult Midgut    2.8 Adult Hindgut    3.2 Adult Malpighian Tubules    2.1 Adult Fat Body    5 Adult Salivary Gland    7.2 Adult Heart    2.875 Adult VirginFemale Spermatheca    5.6 Adult InseminatedFemale Spermatheca    4.5 Adult Ovary    2.1 Adult Testis    7.2 Adult Male Accessory Gland    5.1 Adult Carcass    4.6 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    6.5   NA  Eye    6.475   NA  Brain    9.1   7.175  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    9.8   NA  Crop    3.8   3.8  Midgut    2.8   0.4  Hindgut    3.2   1.8  Malpighian Tubules    2.1   8.8  Fat Body    5   2.9  Salivary Gland    7.2   NA  Heart    2.875   2  Trachea    NA   NA  VirginFemale Spermatheca    5.6   NA  InseminatedFemale Spermatheca    4.5   NA  Ovary    2.1   NA  Testis    7.2   NA  Male Accessory Gland    5.1   3.175  Carcass    4.6 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    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 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    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 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    3 central nervous system, larvae L3    3 central nervous system, pupae P8    2 head, virgin 1-day female    2 head, virgin 4-day female    1 head, virgin 20-day female    1 head, mated 1-day female    1 head, mated 4-day female    1 head, mated 20-day female    1 head, mated 1-day male    2 head, mated 4-day male    2 head, mated 20-day male    3 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    1 digestive system, larvae L3 wandering    1 digestive system, 1-day adult    0 digestive system, 4-day adult    1 digestive system, 20-day adult    1 fat body, larvae L3 wandering    0 fat body, white prepupae    1 fat body, pupae P8    2 carcass, larvae L3 wandering    2 carcass, 1-day adult    1 carcass, 4-day adult    1 carcass, 20-day adult    1 ovary, virgin 4-day female    6 ovary, mated 4-day female    4 testis, mated 4-day male    2 accessory gland, mated 4-day male    1 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 moderate expression to a trough of very 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    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 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    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 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    9 embryo 02-04hr    7 embryo 04-06hr    14 embryo 06-08hr    10 embryo 08-10hr    8 embryo 10-12hr    5 embryo 12-14hr    5 embryo 14-16hr    3 embryo 16-18hr    3 embryo 18-20hr    3 embryo 20-22hr    3 embryo 22-24hr    3 larva L1    2 larva L2    2 larva L3 12hr old    1 larva L3 puffstage 1-2    2 larva L3 puffstage 3-6    3 larva L3 puffstage 7-9    3 white prepupae new    3 white prepupae 12hr    5 white prepupae 24hr    5 pupae 2d postWPP    4 pupae 3d postWPP    3 pupae 4d postWPP    2 adult male 01day    3 adult male 05day    3 adult male 30day    3 adult female 01day    4 adult female 05day    6 adult female 30day    6 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+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 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+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 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+    8 Schneider line 2 Sg4    4 embryonic 1182-4H    5 embryonic GM2    4 embryonic Kc167    4 embryonic S1    13 embryonic S3    6 leg disc CME L1    3 wing disc CME-W2    8 wing disc ML-DmD8    4 wing disc ML-DmD9    5 wing disc ML-DmD16-c3    3 wing disc ML-DmD21    3 wing disc ML-DmD32    5 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    7 antennal disc ML-DmD20-c5    6 mixed discs ML-DmD4-c1    4 CNS ML-DmBG1-c1    9 CNS ML-DmBG2-c2    3 tumorous blood cells mbn2    7 ovary fGS/OSS    4 ovary OSC    7 ovary OSS    2 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    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 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    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 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    2 cold shock, 4-day adult    1 heat shock, 4-day adult    2 Cadmium 50 mM 6 hrs, larvae L3    0 Cadmium 50 mM 12 hrs, larvae L3    1 Cadmium 50 mM 48 hrs, 4-day adult    1 Cadmium 100 mM 48 hrs, 4-day adult    5 Copper 0.5 mM 12 hrs, larvae L3    0 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    0 Zinc 4.5 mM 48 hrs, 4-day adult    2 Ethanol 2.5% 3 hrs, larvae L3    4 Ethanol 5% 3 hrs, larvae L3    1 Ethanol 10% 3 hrs, larvae L3    1 Caffeine 1.5 mg/ml 4 hrs, larvae L3    1 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    1 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    4 Rotenone 2 μg 12 hrs, larvae L3    1 Rotenone 8 μg 12 hrs, larvae L3    1 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_30 mE1_20_mRNA_expression_cluster_06
External Data & Images
Linkouts	BDGP expression data • AT11671 RE18364 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0051989 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG31989-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | pupal stage, with Scer\GAL4pnr-MD237 Cap-D3GD913 viable Cap-D3EY00456 viable (with Cap-D3EY00456) Cap-D3GS12862 viable (with Cap-D3GS12862) Cap-D3EY00456 Sterility Allele female fertile Cap-D3EY00456 female fertile (with Cap-D3EY00456) Cap-D3GS12862 female fertile (with Cap-D3GS12862) Cap-D3EY00456 male fertile Cap-D3EY00456 male fertile (with Cap-D3EY00456) Cap-D3GS12862 male fertile (with Cap-D3GS12862) Cap-D3EY00456 male sterile Cap-D3EY00456 male sterile (with Df(2L)Exel6023) Cap-D3EY00456 Other Phenotypes Allele immune response defective, with Scer\GAL4yolk Cap-D3GD913 meiotic cell cycle defective Cap-D3EY00456 visible, with Scer\GAL4pnr-MD237 Cap-D3GD913 Phenotype manifest in Allele polytene chromosome & nurse cell (with Df(2L)Exel7023) Cap-D3EY00456 primary spermatocyte in meiotic anaphase I Cap-D3EY00456 primary spermatocyte in meiotic prophase I Cap-D3EY00456 trichogen cell, with Scer\GAL4pnr-MD237 Cap-D3GD913
Classical Alleles ( 7 )
For All Classical Alleles Show
Allele of Cap-D3 Class Mutagen Stocks Known lesion Cap-D3f02191 piggyBac transposase 3 -- Cap-D3c07081 piggyBac transposase 1 -- Cap-D3EY00456 P-element activity 1 Yes Cap-D3f02192 1 -- Cap-D3G7988 P-element activity 1 -- Cap-D3GS12862 0 Yes Cap-D3Δ25 0 --
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Cap-D3 Class Mutagen Stocks Known lesion Cap-D3GD913 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Cap-D3GL00575 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Cap-D3Scer\UAS.T:Zzzz\FLAG,T:Ivir\HA1 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2L)Exel6012 (Ryder, 2004.4.26) Df(2L)Exel7023 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD913} NA P{TRiP.GL00575} NA P{UAS-Cap-D3.FLAG-HA} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{PB}Cap-D3c07081 NA PBac{WH}Cap-D3f02191 NA PBac{WH}Cap-D3f02192 NA insertion of mobile activating element P{EP}Cap-D3G7988 NA P{EPgy2}Cap-D3EY00456 NA P{GSV6}tombGS12862 NA
Gene Ontology: Function, Process & Cellular Component ( 5 unique terms )
Terms Based on Experimental Evidence ( 3 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
chromosome organization inferred from mutant phenotype (Hartl et al., 2008) male meiosis chromosome segregation inferred from mutant phenotype (Hartl et al., 2008)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (Longworth et al., 2012)
Terms Based on Predictions or Assertions ( 2 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
mitotic chromosome condensation inferred from electronic annotation with InterPro:IPR026971 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
condensin complex inferred from sequence or structural similarity with human NCAPD3 (Ono et al., 2003) non-traceable author statement (Hartl et al., 2006, Wang et al., 2006)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Cap-D3 allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0051989
Orthologs
OrthoDB Orthologs (29) - 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 EOG68955S Dipteran inclusive ortholog search EOG615GNB Insect inclusive ortholog search EOG6SJ48Q Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (EOG68955S)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\Cap-D3     Drosophila simulans   Dsim\GD23349     Drosophila sechellia   Dsec\GM18553     Drosophila erecta   Dere\GG25078     Drosophila yakuba   Dyak\GE25461     Drosophila ananassae   Dana\GF15146     Drosophila pseudoobscura pseudoobscura   Dpse\GA16597     Drosophila persimilis   Dper\GL25850     Drosophila willistoni   Dwil\GK15235     Drosophila virilis   Dvir\GJ19577     Drosophila mojavensis   Dmoj\GI17990     Drosophila grimshawi   Dgri\GH10294
Orthologs in non-Drosophila Dipterans (EOG615GNB)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL011548   Anopheles gambiae Malaria mosquito  Agam\AGAP004751   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ002920   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ002921   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ002922
Orthologs in non-Dipteran Insects (EOG6SJ48Q)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB55826   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG002349   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH14954   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH14956   Atta cephalotes Leafcutter ant  Acep\ACEP17938   Camponotus floridanus Florida carpenter ant  Cflo\CFLO23180   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL21500   Linepithema humile Argentine ant  Lhum\LH19553   Pogonomyrmex barbatus Red harvester ant  Pbar\PB17903   Solenopsis invicta Red fire ant  Sinv\SINV18585   Acyrthosiphon pisum Pea aphid  Apim\ACYPI000912   Pediculus humanus Human body louse  Phum\PHUM022270
Orthologs in non-Insect Arthropods (None identified)
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 10 )
Bloomington	18522 w1118; PBac{WH}Cap-D3f02191/CyO 36615 y1 sc* v1; P{TRiP.GL00575}attP2 15026 y1 w67c23; P{EPgy2}Cap-D3EY00456 28492 y1 w*; P{EP}Cap-D3G7988 CG31648G7988
Harvard	- PBac{PB}Cap-D3c07081 - PBac{WH}Cap-D3f02191 - PBac{WH}Cap-D3f02192
Kyoto	114531 yd2 w1118 P{ey-FLP.N}2; PBac{WH}Cap-D3f02191 P{neoFRT}40A/CyO y+
VDRC	v29657 w1118; P{GD913}v29657 v9402 w1118; P{GD913}v9402/TM3
Genomic Clones ( 2 )
	BACR35L07 BACR44J04 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 9 )
	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	AT11671 RE18364 RE74832
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RE29872 RE64921 SD18346
Other clones	Dmel_dig_003694_0678_0736 FGM230F05 RP001036744
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0051989 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 33778
Antibody Information
	polyclonal (Longworth et al., 2012)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Cap-D3 CG31989 (Hartl, 2003.2.28) Source for identity of: Cap-D3 CG31989 (Ono et al., 2003)
Source for database merge of	Source for merge of: CG31989 BcDNA:RE74832 (FlyBase, 1996-)
Additional comments	Source for merge of CG31989 BcDNA:RE74832 was a shared cDNA (date:030728). (FlyBase Genome Annotators, 2002-2003, FlyBase, 1996-)
Other Comments
	Cap-D3 is necessary for normal territory foromation. When it is compromised through mutation, chromatin is seemingly dispersed throughout the nucleus. (Hartl et al., 2008) Cap-D3 promotes disassembly of polytene structure into chromosomal components. (Hartl et al., 2008) Homozygous mutants are male sterile and carry polytene chromosomes in their nurse cell nuclei. (Hartl et al., 2006)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_135091 NM_001169416 NM_001169417 RefSeq (Proteins) • NP_608935 NP_001162887 NP_001162888 DDBJ / EMBL / GenBank • AAF52258 AAL68275 AAM50544 AAN71503 ACZ94178 ACZ94179 AY075462 AY118684 BF497492 BI213051 BI580616 BT001748 BZ665506 CZ471223 Entrez Gene - A searchable database of RefSeq genes. • 33778 UniProtKB/TrEMBL • E1JHU8 Q8IGJ9 Q8MSN8 Q8SY09 Q9VMQ4
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Armadillo-type fold (IPR016024) Condensin subunit 1/Condensin-2 complex subunit D3 (IPR026971) Armadillo-like helical (IPR011989) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • AT11671 RE18364
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0051989 DRSC - Results from RNAi screens. • FBgn0051989 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0051989 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG31989-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0051989 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 33778 modMine - Data generated by the modENCODE project. • FBgn0051989
Synonyms & Secondary IDs ( 8 )
Reported As
Symbol Synonym	BcDNA:RE74832   Cap-D3 (Hartl et al., 2008, Jiang et al., 2007, Baxley et al., 2011, Hartl et al., 2008, Hartl et al., 2008) CAP-D3 (Pek and Kai, 2011, Savvidou et al., 2005, Pek and Kai, 2011) CG6922   CG14019   CG31989 (Jiang et al., 2007, Ono et al., 2003, Ni et al., 2011.7.19) dCap-D3 (Longworth et al., 2008, Longworth et al., 2012)
Name Synonym	Chromosome associated protein D3 (Ono et al., 2003, Wang et al., 2006, Hartl et al., 2006)
Secondary FlyBase IDs
	FBgn0031712 FBgn0031714 FBgn0064854
References ( 32 )
Generate a list of	All references relating to this gene ( 32 )
List References by type	Research paper  ( 11 ) Supplementary material  ( 4 ) Personal communication to FlyBase  ( 10 ) Abstract  ( 2 ) FlyBase analysis  ( 4 ) Website  ( 1 )
Recent research papers ( 5 )
	Bauer et al., 2012, PLoS Genet. 8(8): e1002873 Condensin II Promotes the Formation of Chromosome Territories by Inducing Axial Compaction of Polyploid Interphase Chromosomes. [FBrf0219354] Longworth et al., 2012, PLoS Genet. 8(4): e1002618 A Shared Role for RBF1 and dCAP-D3 in the Regulation of Transcription with Consequences for Innate Immunity. [FBrf0218058] Baxley et al., 2011, Dev. Biol. 356(2): 398--410 The role of the Suppressor of Hairy-wing insulator protein in Drosophila oogenesis. [FBrf0214454] Pek and Kai, 2011, Proc. Natl. Acad. Sci. U.S.A. 108(29): 12007--12012 DEAD-box RNA helicase Belle/DDX3 and the RNA interference pathway promote mitotic chromosome segregation. [FBrf0214405] Pek and Kai, 2011, Curr. Biol. 21(1): 39--44 A role for vasa in regulating mitotic chromosome condensation in Drosophila. [FBrf0212718] Show all research papers ...