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Gene Dmel\sina

General Information
Symbol	Dmel\sina	Species	D. melanogaster
Name	seven in absentia	Annotation symbol	CG9949
Feature type	protein_coding_gene	FlyBase ID	FBgn0003410
Gene Model Status	Current	Stock availability	18 publicly available
Genomic Location
Chromosome (arm)	3L	Recombination map	3-45.5
Cytogenetic map	73D2-73D3	Sequence location	3L:16,846,851..16,851,812 [+]
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 seven in absentia is referred to in FlyBase by the symbol Dmel\sina (CG9949, FBgn0003410). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: protein binding; protein self-association. There is experimental evidence that it is involved in the biological process: sensory organ development; regulation of R7 cell differentiation; proteasomal protein catabolic process. 29 alleles are reported. The phenotypes of these alleles are annotated with: organ system subdivision; external compound sense organ; adult segment; peripheral nervous system; organ system; thoracic segment; non-connected developing system; histaminergic neuron; sense organ; pigment cell. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: SIAH-type domain; Seven-in-absentia protein, TRAF-like domain; Seven-in-absentia protein, sina; TRAF-like; Zinc finger, RING-type; Zinc finger, RING/FYVE/PHD-type; Zinc finger, SIAH-type. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, adult central nervous system, adult crop, larval midgut, larval/adult hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult spermathecae, adult male accessory gland, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1632100_s_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of sina. Gene sequence location is 3L:16846851..16851812.
User Contributed Data
	Beta version, feedback welcome
External Summaries
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	sina: seven in absentia (R. Carthew) Photoreceptor cell R7 of eye transformed into a cone cell, resulting in the absence of R7 in adult ommatidia. In amorphic alleles, 40% of ommatidia also missing an additional photoreceptor cell and 10% of ommatidia also missing two photoreceptor cells. Eyes weakly rough; ocelli appear normal. Adult bristles sometimes missing and sometimes duplicated, arising from a common socket; occasionally three bristles arise from a common socket. Wings sometimes held outstretched. Adults eclose normally but fail to survive after 24 h; display lethargic behavior and are not fertile, though mature sperm and ova are produced.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02	Controlled Vocabulary Terms cytoplasm
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 73D2-73D3   Limits computationally determined from genome sequence between P{PZ}Baldspot02281 and P{PZ}blot01658
Experimentally Determined Cytological Location
Cytogenetic map Notes References 73C-73C   (determined by in situ hybridisation)   (Weber et al., 2005) 73D3-73D5   (determined by in situ hybridisation) 73D2--7 (determined by in situ hybridisation)   (Carthew and Rubin, 1990)
Experimentally Determined Recombination Data
Location	3-45.5 (Carthew and Rubin, 1990)
Left of (cM)	cu (Carthew and Rubin, 1990)
Right of (cM)	st th (Carthew and Rubin, 1990)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\sina 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 5.46 Low-frequency RNA-Seq exon junction(s) not annotated.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) sina-RA FBtr0075332  NM_057377   3191   314 sina-RB FBtr0075333  NM_168689   2482   314
Additional Transcript Data & Comments
Reported size (kB)	3.3 (northern blot) (Carthew and Rubin, 1990)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein sina-PA   FBpp0075091   33.7   314   6.81     NP_476725   AAF49403 sina-PB   FBpp0075092   33.7   314   6.81     NP_730206   AAN11744
Additional Polypeptide Data & Comments
Reported size (kDa)	314 (aa); 34 (kD predicted) (Carthew and Rubin, 1990)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Seven-in-absentia protein, TRAF-like domain (IPR018121) Zinc finger, RING-type (IPR001841) Seven-in-absentia protein, sina (IPR004162) TRAF-like (IPR008974) Zinc finger, SIAH-type (IPR013010) SIAH-type domain (IPR013323) Zinc finger, RING/FYVE/PHD-type (IPR013083)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA201247   AA247000   AA390849   AA392143   AA392631   AA433273   AA438493   AA697793   AA735505   AA736171   AA941126   AA950462   AA978671   AE014296 AAF49403   AE014296 AAN11744   AC006933   AI518942   AI519500   AI520378   AI546130   AI946339   AY060358 AAL25397   BF494890   BH146159   BI161594   BI161983   BI169650   BI213536   BI215888   BI227708   BI242106   BI357843   BI361802   BI362777   BI362857   BI365310   BI369048   BI372434   BI482643   BI618743   BP549530   CO156118   CO181372   CO185713   CO187622   CO187728   CO266907   CO274628   CO277742   CO278354   CO282220   CO282686   CO286527   CO288439   CO290373   CO290778   CO298119   CO299240   CO301473   CO302371   CO304823   CO316889   CO318182   CO322426   CO323618   CO326429   CO328620   CO333421   CO337910   CO343675   EC058678   EC062069   EC065752   EC066695   EC069141   EC070358   EC072091   EC073871   EC080428   EC080686   EC199243   EC199606   EC200108   EC206017   EC215087   EC221533   EC223031   EC225765   EC226895   EC230879   EC234745   EC244486   EC244982   EC246454   EC253791   EC260099   EC261599   EC265759   M38384 AAA28901
UniProtKB/Swiss-Prot	P21461
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 | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   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) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Carthew and Rubin, 1990)
Additional Descriptive Data
	sina transcripts are expressed throughout the Drosophila life cycle with a peak in pupal stages. (Carthew and Rubin, 1990)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference third instar larval stage   photoreceptor cell R1 | presumptive   (Carthew and Rubin, 1990) embryonic/larval midgut   (Carthew and Rubin, 1990) embryonic/larval fat body   (Carthew and Rubin, 1990) cone cell   (Carthew and Rubin, 1990) five-cell ommatidial precursor cluster   (Carthew and Rubin, 1990) photoreceptor cell R6 | presumptive   (Carthew and Rubin, 1990) peripodial epithelium of eye-antennal disc   (Carthew and Rubin, 1990) eye-antennal disc   (Carthew and Rubin, 1990) peripodial epithelium of ventral thoracic disc   (Carthew and Rubin, 1990) photoreceptor cell R7 | presumptive   (Carthew and Rubin, 1990) morphogenetic furrow | posterior to   (Carthew and Rubin, 1990) peripodial epithelium   (Carthew and Rubin, 1990) photoreceptor cell R4 | presumptive   (Carthew and Rubin, 1990) morphogenetic furrow | anterior to   (Carthew and Rubin, 1990) photoreceptor cell R3 | presumptive   (Carthew and Rubin, 1990) peripodial epithelium of wing disc   (Carthew and Rubin, 1990) embryonic/larval hindgut   (Carthew and Rubin, 1990) pupal stage P7   cone cell   (Carthew and Rubin, 1990) Comment:reference states 40 hr APF ommatidium   (Carthew and Rubin, 1990) Comment:reference states 40 hr APF photoreceptor cell R1 -- photoreceptor cell R8   (Carthew and Rubin, 1990) Comment:reference states 40 hr APF pigment cell   (Carthew and Rubin, 1990) Comment:reference states 40 hr APF retina   (Carthew and Rubin, 1990) Comment:reference states 40 hr APF
Additional Descriptive Data
	sina protein is found predominantly in the nucleus though a low level is observed in the cytoplasm. (Carthew and Rubin, 1990)
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
cytoplasm inferred from direct assay (Carthew and Rubin, 1990) nucleus inferred from direct assay (assigned by UniProtKB) (Carthew and Rubin, 1990) ubiquitin ligase complex inferred from direct assay (Li et al., 2002)
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: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, adult central nervous system, adult crop, larval midgut, larval/adult hindgut, larval/adult Malpighian tubules, adult heart, larval/adult fat body, larval/adult salivary gland, larval trachea, adult spermathecae, adult male accessory gland, larval/adult carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  None   Low   Moderate   High  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    510.625 Larval Midgut    127.4 Larval Hindgut    139.2 Larval Malpighian Tubules    339.6 Larval Fat Body    226.2 Larval Salivary Gland    172.9 Larval Trachea    202.8 Larval Carcass    126.725 Adult Head    147.5 Adult Eye    149.675 Adult Brain    305.4 Adult Thoracic-Abdominal Ganglion    360.9 Adult Crop    142.9 Adult Midgut    97 Adult Hindgut    126.9 Adult Malpighian Tubules    124.5 Adult Fat Body    119.2 Adult Salivary Gland    207 Adult Heart    123.975 Adult VirginFemale Spermatheca    204.3 Adult InseminatedFemale Spermatheca    269.6 Adult Ovary    95.1 Adult Testis    26.5 Adult Male Accessory Gland    122.8 Adult Carcass    125.5 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    147.5   NA  Eye    149.675   NA  Brain    305.4   510.625  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    360.9   NA  Crop    142.9   127.4  Midgut    97   139.2  Hindgut    126.9   339.6  Malpighian Tubules    124.5   226.2  Fat Body    119.2   172.9  Salivary Gland    207   NA  Heart    123.975   202.8  Trachea    NA   NA  VirginFemale Spermatheca    204.3   NA  InseminatedFemale Spermatheca    269.6   NA  Ovary    95.1   NA  Testis    26.5   NA  Male Accessory Gland    122.8   126.725  Carcass    125.5 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    48 central nervous system, larvae L3    39 central nervous system, pupae P8    27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female    73 ovary, mated 4-day female    68 testis, mated 4-day male    100 accessory gland, mated 4-day male    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (48) central nervous system, larvae L3  (39) central nervous system, pupae P8  (27) head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female  (73) ovary, mated 4-day female  (68) testis, mated 4-day male  (100) accessory gland, mated 4-day male    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    48 central nervous system, larvae L3    39 central nervous system, pupae P8    27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female    73 ovary, mated 4-day female    68 testis, mated 4-day male    100 accessory gland, mated 4-day male    15 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    48 central nervous system, larvae L3    39 central nervous system, pupae P8    27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female    73 ovary, mated 4-day female    68 testis, mated 4-day male    100 accessory gland, mated 4-day male    15 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    48 central nervous system, larvae L3    39 central nervous system, pupae P8    27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female    73 ovary, mated 4-day female    68 testis, mated 4-day male    100 accessory gland, mated 4-day male    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (48) central nervous system, larvae L3  (39) central nervous system, pupae P8  27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female  (73) ovary, mated 4-day female  (68) testis, mated 4-day male  (100) accessory gland, mated 4-day male    15 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    48 central nervous system, larvae L3    39 central nervous system, pupae P8    27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female    73 ovary, mated 4-day female    68 testis, mated 4-day male    100 accessory gland, mated 4-day male    15 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    48 central nervous system, larvae L3    39 central nervous system, pupae P8    27 head, virgin 1-day female    14 head, virgin 4-day female    12 head, virgin 20-day female    8 head, mated 1-day female    14 head, mated 4-day female    8 head, mated 20-day female    8 head, mated 1-day male    18 head, mated 4-day male    14 head, mated 20-day male    13 salivary gland, larvae L3 wandering    5 salivary gland, white prepupae    16 digestive system, larvae L3 wandering    17 digestive system, 1-day adult    6 digestive system, 4-day adult    8 digestive system, 20-day adult    6 fat body, larvae L3 wandering    5 fat body, white prepupae    19 fat body, pupae P8    19 carcass, larvae L3 wandering    22 carcass, 1-day adult    10 carcass, 4-day adult    10 carcass, 20-day adult    10 ovary, virgin 4-day female    73 ovary, mated 4-day female    68 testis, mated 4-day male    100 accessory gland, mated 4-day male    15 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    62 embryo 04-06hr    45 embryo 06-08hr    43 embryo 08-10hr    42 embryo 10-12hr    34 embryo 12-14hr    35 embryo 14-16hr    27 embryo 16-18hr    26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr    26 white prepupae 24hr    33 pupae 2d postWPP    31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day    26 adult male 05day    31 adult male 30day    35 adult female 01day    21 adult female 05day    38 adult female 30day    38 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (70) embryo 02-04hr  (62) embryo 04-06hr  (45) embryo 06-08hr  (43) embryo 08-10hr  (42) embryo 10-12hr  (34) embryo 12-14hr  (35) embryo 14-16hr  (27) embryo 16-18hr  26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr  26 white prepupae 24hr  (33) pupae 2d postWPP  (31) pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day  26 adult male 05day  (31) adult male 30day  (35) adult female 01day    21 adult female 05day  (38) adult female 30day  (38) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    62 embryo 04-06hr    45 embryo 06-08hr    43 embryo 08-10hr    42 embryo 10-12hr    34 embryo 12-14hr    35 embryo 14-16hr    27 embryo 16-18hr    26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr    26 white prepupae 24hr    33 pupae 2d postWPP    31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day    26 adult male 05day    31 adult male 30day    35 adult female 01day    21 adult female 05day    38 adult female 30day    38 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    62 embryo 04-06hr    45 embryo 06-08hr    43 embryo 08-10hr    42 embryo 10-12hr    34 embryo 12-14hr    35 embryo 14-16hr    27 embryo 16-18hr    26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr    26 white prepupae 24hr    33 pupae 2d postWPP    31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day    26 adult male 05day    31 adult male 30day    35 adult female 01day    21 adult female 05day    38 adult female 30day    38 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    62 embryo 04-06hr    45 embryo 06-08hr    43 embryo 08-10hr    42 embryo 10-12hr    34 embryo 12-14hr    35 embryo 14-16hr    27 embryo 16-18hr    26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr    26 white prepupae 24hr    33 pupae 2d postWPP    31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day    26 adult male 05day    31 adult male 30day    35 adult female 01day    21 adult female 05day    38 adult female 30day    38 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (70) embryo 02-04hr  (62) embryo 04-06hr  (45) embryo 06-08hr  (43) embryo 08-10hr  (42) embryo 10-12hr  (34) embryo 12-14hr  (35) embryo 14-16hr  27 embryo 16-18hr  26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr  26 white prepupae 24hr  (33) pupae 2d postWPP  31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day  26 adult male 05day  31 adult male 30day  (35) adult female 01day    21 adult female 05day  (38) adult female 30day  (38) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    62 embryo 04-06hr    45 embryo 06-08hr    43 embryo 08-10hr    42 embryo 10-12hr    34 embryo 12-14hr    35 embryo 14-16hr    27 embryo 16-18hr    26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr    26 white prepupae 24hr    33 pupae 2d postWPP    31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day    26 adult male 05day    31 adult male 30day    35 adult female 01day    21 adult female 05day    38 adult female 30day    38 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    70 embryo 02-04hr    62 embryo 04-06hr    45 embryo 06-08hr    43 embryo 08-10hr    42 embryo 10-12hr    34 embryo 12-14hr    35 embryo 14-16hr    27 embryo 16-18hr    26 embryo 18-20hr    15 embryo 20-22hr    14 embryo 22-24hr    16 larva L1    9 larva L2    7 larva L3 12hr old    6 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    17 larva L3 puffstage 7-9    25 white prepupae new    24 white prepupae 12hr    26 white prepupae 24hr    33 pupae 2d postWPP    31 pupae 3d postWPP    24 pupae 4d postWPP    22 adult male 01day    26 adult male 05day    31 adult male 30day    35 adult female 01day    21 adult female 05day    38 adult female 30day    38 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+    29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2    26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC    31 ovary OSS    18 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (29) Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2  26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC  (31) ovary OSS    18 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2    26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC    31 ovary OSS    18 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+    29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2    26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC    31 ovary OSS    18 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2    26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC    31 ovary OSS    18 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2  26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC  31 ovary OSS    18 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2    26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC    31 ovary OSS    18 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+    29 Schneider line 2 Sg4    19 embryonic 1182-4H    15 embryonic GM2    26 embryonic Kc167    15 embryonic S1    19 embryonic S3    18 leg disc CME L1    20 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    16 wing disc ML-DmD16-c3    21 wing disc ML-DmD21    10 wing disc ML-DmD32    8 haltere disc ML-DmD17-c3    22 eye-antennal disc ML-DmD11    20 antennal disc ML-DmD20-c5    10 mixed discs ML-DmD4-c1    17 CNS ML-DmBG1-c1    13 CNS ML-DmBG2-c2    17 tumorous blood cells mbn2    24 ovary fGS/OSS    17 ovary OSC    31 ovary OSS    18 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    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult    51 Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3    43 Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult    43 Paraquat 10 mM 48 hrs, 4-day adult    30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult  (51) Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3  (43) Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (55) Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult  (43) Paraquat 10 mM 48 hrs, 4-day adult  (30) Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult    51 Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3    43 Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult    43 Paraquat 10 mM 48 hrs, 4-day adult    30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 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    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult    51 Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3    43 Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult    43 Paraquat 10 mM 48 hrs, 4-day adult    30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult    51 Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3    43 Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult    43 Paraquat 10 mM 48 hrs, 4-day adult    30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult  (51) Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3  (43) Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (55) Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult  (43) Paraquat 10 mM 48 hrs, 4-day adult  30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult    51 Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3    43 Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult    43 Paraquat 10 mM 48 hrs, 4-day adult    30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 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    17 cold shock, 4-day adult    12 heat shock, 4-day adult    20 Cadmium 50 mM 6 hrs, larvae L3    7 Cadmium 50 mM 12 hrs, larvae L3    15 Cadmium 50 mM 48 hrs, 4-day adult    20 Cadmium 100 mM 48 hrs, 4-day adult    51 Copper 0.5 mM 12 hrs, larvae L3    6 Copper 15 mM 48 hrs, 4-day adult    24 Zinc 5 mM 12 hrs, larvae L3    8 Zinc 4.5 mM 48 hrs, 4-day adult    20 Ethanol 2.5% 3 hrs, larvae L3    43 Ethanol 5% 3 hrs, larvae L3    8 Ethanol 10% 3 hrs, larvae L3    7 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    55 Caffeine 25 mg/ml 48 hrs, 4-day adult    15 Paraquat 5 mM 48 hrs, 4-day adult    43 Paraquat 10 mM 48 hrs, 4-day adult    30 Rotenone 2 μg 12 hrs, larvae L3    9 Rotenone 8 μg 12 hrs, larvae L3    7 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_01 mE1_20_mRNA_expression_cluster_03
External Data & Images
Linkouts	BDGP expression data • HL08111 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003410 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9949-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for sina Stages(s) 1-3 Stages(s) 4-6 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable sinaSH sinaW25 viable, with Scer\GAL4pnr-MD237 sinaGD1532 viable (with sina2) sina3 viable (with sina3) sina2 viable | recessive sina2 sina3 Sterility Allele female sterile sina1 sina2 sina3 male sterile sina1 sina2 sina3 sterile | recessive sinaSH Other Phenotypes Allele behavior defective | adult stage sina2 sina3 hypoactive sina1 short lived sinaSH uncoordinated sina2 sina3 visible sina700 sinaGMR.PN sinaSH visible (with sina2) sina3 visible (with sina3) sina2 visible | adult stage sina2 sina3 wild-type sina+t11 Phenotype manifest in Allele adult abdominal segment 3 & chaeta (with sina2) sina3 adult abdominal segment 3 & chaeta (with sina3) sina2 adult abdominal segment 3 & microchaeta (with sina2) sina3 adult abdominal segment 3 & microchaeta (with sina3) sina2 adult abdominal segment 3 & tormogen cell | supernumerary (with sina2) sina3 adult abdominal segment 3 & tormogen cell | supernumerary (with sina3) sina2 adult abdominal segment 3 & trichogen cell | supernumerary (with sina2) sina3 adult abdominal segment 3 & trichogen cell | supernumerary (with sina3) sina2 adult abdominal segment 4 & chaeta (with sina2) sina3 adult abdominal segment 4 & chaeta (with sina3) sina2 adult abdominal segment 4 & microchaeta (with sina2) sina3 adult abdominal segment 4 & microchaeta (with sina3) sina2 adult abdominal segment 4 & tormogen cell | supernumerary (with sina2) sina3 adult abdominal segment 4 & tormogen cell | supernumerary (with sina3) sina2 adult abdominal segment 4 & trichogen cell | supernumerary (with sina2) sina3 adult abdominal segment 4 & trichogen cell | supernumerary (with sina3) sina2 chaeta sinaSH chaeta | ectopic sinaSH cone cell sinaGMR.PN dorsal double row sina2 sina3 eo neuron | embryonic stage sinaunspecified external sensory organ (with sina2) sina3 external sensory organ (with sina3) sina2 eye sinaGMR.PN sinaP21 sinaunspecified sinaSH eye (with sina2) sina3 eye (with sina3) sina2 eye photoreceptor cell sina2 sina3 sinaGMR.PN macrochaeta sina1 sina2 sina3 medial triple row sina2 sina3 mesothoracic tergum & chaeta (with sina2) sina3 mesothoracic tergum & chaeta (with sina3) sina2 mesothoracic tergum & microchaeta (with sina2) sina3 mesothoracic tergum & microchaeta (with sina3) sina2 mesothoracic tergum & tormogen cell | supernumerary (with sina2) sina3 mesothoracic tergum & tormogen cell | supernumerary (with sina3) sina2 mesothoracic tergum & trichogen cell | supernumerary (with sina2) sina3 mesothoracic tergum & trichogen cell | supernumerary (with sina3) sina2 microchaeta sina2 sina3 ommatidium sina1 sinaGMR.PN ommatidium (with sina2) sina3 ommatidium (with sina3) sina2 photoreceptor cell R1 | somatic clone | supernumerary sina1 photoreceptor cell R1 | third instar larval stage (with sina2) sina3 photoreceptor cell R1 | third instar larval stage (with sina3) sina2 photoreceptor cell R6 | third instar larval stage (with sina2) sina3 photoreceptor cell R6 | third instar larval stage (with sina3) sina2 photoreceptor cell R7 sina1 sina2 sina3 sina4 sina700 sinaP21 sinaunspecified photoreceptor cell R7 (with sina2) sina3 photoreceptor cell R7 (with sina3) sina2 photoreceptor cell R7 | third instar larval stage (with sina2) sina3 photoreceptor cell R7 | third instar larval stage (with sina3) sina2 photoreceptor cell R8 of pale ommatidium (with sina2) sina3 photoreceptor cell R8 of pale ommatidium (with sina3) sina2 pigment cell sinaGMR.PN presumptive embryonic/larval peripheral nervous system sinaunspecified thecogen cell | embryonic stage sinaunspecified trichogen cell | supernumerary (with sina2) sina3 trichogen cell | supernumerary (with sina3) sina2 wing sina1 sinaW25 wing margin bristle sinaSH
Classical Alleles ( 16 )
For All Classical Alleles Show
Allele of sina Class Mutagen Stocks Known lesion sina3 amorphic allele - genetic evidence ethyl methanesulfonate 3 Yes sinaBG02648 P-element activity 2 Yes sina2 amorphic allele - genetic evidence ethyl methanesulfonate 1 Yes sinaP21 1 -- sinaSH recombination ends-out gene targeting 1 Yes sina1 hypomorphic allele - genetic evidence ethyl methanesulfonate 0 Yes sina4 loss of function allele, hypomorphic allele - genetic evidence ethyl methanesulfonate 0 Yes sina5 hypomorphic allele - genetic evidence ethyl methanesulfonate 0 Yes sina6 hypomorphic allele - genetic evidence ethyl methanesulfonate 0 -- sina700 0 -- sinaC2 ethyl methanesulfonate 0 -- sinaF1 ethyl methanesulfonate 0 -- sinaI1 ethyl methanesulfonate 0 -- sinaN6 ethyl methanesulfonate 0 -- sinaunspecified 0 -- sinaW25 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 13 )
For All Alleles Carried on Transgenic Constructs Show
Allele of sina Class Mutagen Stocks Known lesion sinaGMR.PN in vitro construct - regulatory fusion 4 Yes sinaScer\UAS.T:Hsap\MYC in vitro construct - coding region fusion in vitro construct - regulatory fusion 2 Yes sinaGD1532 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sinaHMS02008 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sinaKK107603 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sinaΔRING.Scer\UAS.T:Hsap\MYC in vitro construct - coding region fusion in vitro construct - regulatory fusion in vitro construct - deletion 1 Yes sina+t11 in vitro construct - genomic fragment 0 Yes sina2-199.hs.T:Hsap\MYC in vitro construct - coding region fusion in vitro construct - regulatory fusion 0 Yes sina2-314.hs.T:Hsap\MYC in vitro construct - coding region fusion in vitro construct - regulatory fusion 0 Yes sinaAct5C.T:Hsap\MYC in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes sinaMtnA.T:PV\Pym in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes sinaNIG.9949R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes sinasev.PL in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(3L)Exel9003 (Ryder, 2004.4.26) Df(3L)Exel9004 (Ryder, 2004.4.26) Df(3L)st103 (Carthew and Rubin, 1990) Df(3L)st-g18 (Carthew and Rubin, 1990) Df(3L)st-j11 (Carthew and Rubin, 1990) Df(3L)st-k2 (Carthew and Rubin, 1990) Df(3L)st-k7 (Carthew and Rubin, 1990) Df(3L)tra (Carthew and Rubin, 1990)
Not disrupted in	Df(3L)st4 (Carthew and Rubin, 1990) Df(3L)st6 (Carthew and Rubin, 1990) Df(3L)st62 (Carthew and Rubin, 1990) Df(3L)st106 (Carthew and Rubin, 1990) Df(3L)st-b11 (Carthew and Rubin, 1990) Df(3L)st-e5 (Carthew and Rubin, 1990) In(3L)std11 (Carthew and Rubin, 1990)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD655} NA P{GD1532} NA P{KK107603} NA P{NIG.9949R} NA P{TRiP.HMS02008} NA characterization construct P{GMR-sina.N} NA P{sev-sina} NA P{sina+HX41} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{GT1}sinaBG02648 NA PBac{PB}Rh4c04779 NA insertion of enhancer trap P{lacW}Rh4W25 No
Gene Ontology: Function, Process & Cellular Component ( 14 unique terms )
Terms Based on Experimental Evidence ( 8 terms )
Molecular Function
CV term Evidence References
protein binding inferred from physical interaction with eff AND inferred from physical interaction with phyl (Tang et al., 1997) inferred from physical interaction with phyl (assigned by UniProtKB) (Boulton et al., 2000) protein self-association inferred from physical interaction with sina (Li et al., 2002)
Biological Process
CV term Evidence References
proteasomal protein catabolic process inferred from direct assay (Cooper et al., 2008) regulation of R7 cell differentiation inferred from mutant phenotype (Li et al., 2002) inferred from mutant phenotype (assigned by UniProtKB) (Carthew and Rubin, 1990) sensory organ development inferred from mutant phenotype (Pi et al., 2001)
Cellular Component
CV term Evidence References
cytoplasm inferred from direct assay (Carthew and Rubin, 1990) nucleus inferred from direct assay (assigned by UniProtKB) (Carthew and Rubin, 1990) ubiquitin ligase complex inferred from direct assay (Li et al., 2002)
Terms Based on Predictions or Assertions ( 7 terms )
Molecular Function
CV term Evidence References
ubiquitin-protein ligase activity inferred from electronic annotation with InterPro:IPR013323 (FlyBase Curators et al., 2004-) zinc ion binding inferred from electronic annotation with InterPro:IPR001841, InterPro:IPR013010, InterPro:IPR013323 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
protein ubiquitination inferred from electronic annotation with InterPro:IPR013323 (FlyBase Curators et al., 2004-) proteolysis traceable author statement (Ou et al., 2003) R7 cell fate commitment traceable author statement (Kumar and Moses, 2000, Ou et al., 2003) ubiquitin-dependent protein catabolic process inferred from electronic annotation with InterPro:IPR004162, InterPro:IPR018121 (FlyBase Curators et al., 2004-) non-traceable author statement (Carthew, 2000.7.12)
Cellular Component
CV term Evidence References
nucleus non-traceable author statement (Swiss-Prot Project Members, 1991.5.1)
Sequence Ontology: Class of Gene
	gene_with_edited_transcript (Graveley et al., 2011) nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
sina - Arpc2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG11107 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG13472 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG15098 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG2021 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG2065 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG32344 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG5746 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG6453 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG7033 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - CG8545 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - FK506-bp2 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Gp210 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Hsc70-1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Hsp23 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Ns1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - P32 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Prosα4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - RpL7-like anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - RpS19b anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rpb8 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rpt1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rpt3 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rpt4 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rpt5 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rpt6 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Rs1 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Saf-B anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Sec23 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Ski6 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Srp54 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - Srp72 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - bor anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - isoQC anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - mts anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - ref(2)P anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23) sina - tws 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 sina allele Gene References sina1 CycE (Brumby et al., 2004) svp (Hiromi et al., 1993) sina2 CycE (Brumby et al., 2004) ed (Bai et al., 2001) msi (Hirota et al., 1999, Okabe et al., 2001) phyl (Tang et al., 1997) sty (Kramer et al., 1999) ttk (Hirota et al., 1999, Pi et al., 2001) sina3 ed (Bai et al., 2001) msi (Hirota et al., 1999, Okabe et al., 2001) phyl (Tang et al., 1997) Src64B (Kussick et al., 1993) svp (Hiromi et al., 1993) ttk (Hirota et al., 1999, Pi et al., 2001) sina4 E(sina)1 (Carthew et al., 1994) E(sina)3 (Carthew et al., 1994) E(sina)4 (Carthew et al., 1994) E(sina)6 (Carthew et al., 1994) E(sina)46C (Carthew et al., 1994) ES1-1 (Neufeld et al., 1998) ES3-1 (Neufeld et al., 1998) fry (Neufeld et al., 1998) gl (Carthew et al., 1994) Hsp83 (Carthew et al., 1994) pnut (Neufeld and Rubin, 1994, Carthew et al., 1994) pros (Kauffmann et al., 1996) rl (Carthew et al., 1994) S (Neufeld et al., 1998) Sin3A (Neufeld et al., 1998) SS3-6 (Neufeld et al., 1998) sinaGMR.PN bur (Neufeld et al., 1998) E(sina)6 (Neufeld et al., 1998) eff (Neufeld et al., 1998) ES1-1 (Neufeld et al., 1998) ES2-1 (Neufeld et al., 1998) ES3-1 (Neufeld et al., 1998) fry (Neufeld et al., 1998) gl (Neufeld et al., 1998) Hsp83 (Neufeld et al., 1998) lilli (Neufeld et al., 1998) S (Neufeld et al., 1998) Sin3A (Neufeld et al., 1998) SS3-1 (Neufeld et al., 1998) SS3-5 (Neufeld et al., 1998) SS3-6 (Neufeld et al., 1998) Su(Tpl) (Neufeld et al., 1998)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 65183 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003410 DroID - A comprehensive database of gene and protein interactions. • FBgn0003410 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39884
Orthologs
OrthoDB Orthologs (47) - 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 EOG6CZC26 Dipteran inclusive ortholog search EOG6GHZZ3 Insect inclusive ortholog search EOG6XWDTR Arthropod inclusive ortholog search EOG6FN30N Metazoa inclusive ortholog search EOG6XHBTB
Orthologs in Drosophila Species (EOG6CZC26)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\sina     Drosophila simulans   Dsim\GD14671 Y   Drosophila sechellia   Dsec\GM25664 Y   Drosophila erecta   Dere\sina Y   Drosophila yakuba   Dyak\GE19881 Y   Drosophila ananassae   Dana\GF23936 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA22147 Y   Drosophila persimilis   Dper\GL20852 Y   Drosophila willistoni   Dwil\sina Y   Drosophila virilis   Dvir\sina Y   Drosophila mojavensis   Dmoj\GI12443 Y   Drosophila grimshawi   Dgri\GH16597 Y
Orthologs in non-Drosophila Dipterans (EOG6GHZZ3)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL009614   Anopheles gambiae Malaria mosquito  Agam\AGAP006127   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ009247
Orthologs in non-Dipteran Insects (EOG6XWDTR)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\sina   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG008355   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH10926   Atta cephalotes Leafcutter ant  Acep\ACEP20112   Camponotus floridanus Florida carpenter ant  Cflo\CFLO14016   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL15759   Linepithema humile Argentine ant  Lhum\LH10008   Linepithema humile Argentine ant  Lhum\LH18570   Pogonomyrmex barbatus Red harvester ant  Pbar\PB26053   Solenopsis invicta Red fire ant  Sinv\SINV11283   Acyrthosiphon pisum Pea aphid  Apim\ACYPI003358   Bombyx mori Silkmoth  Bmor\BGIBMGA002878   Pediculus humanus Human body louse  Phum\PHUM333800   Tribolium castaneum Red flour beetle  Tcas\TC001774
Orthologs in non-Insect Arthropods (EOG6FN30N)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_299932   Ixodes scapularis Deer tick  Isca\ISCW015643
Orthologs in non-Arthropod Metazoa (EOG6XHBTB)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\siah-1   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_008487gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_013194gn   Danio rerio Zebrafish  Drer\ENSDARG00000044381   Danio rerio Zebrafish  Drer\siah1   Xenopus tropicalis Western clawed frog  Xtro\siah2   Xenopus tropicalis Western clawed frog  Xtro\siah1   Gallus gallus Domestic chicken  Ggal\SIAH1   Gallus gallus Domestic chicken  Ggal\SIAH2   Mus musculus House mouse  Mmus\Siah1b   Mus musculus House mouse  Mmus\Siah1a   Mus musculus House mouse  Mmus\Siah2   Rattus norvegicus Norway rat  Rnor\Siah1a   Rattus norvegicus Norway rat  Rnor\Siah2   Homo sapiens Human  Hsap\SIAH2   Homo sapiens Human  Hsap\ENSG00000196470
Human Orthologs (2)
Gene OMIM HGNC Hsap\SIAH2     Hsap\ENSG00000196470
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD14671 Drosophila sechellia Dsec\GM25664 Drosophila erecta Dere\sina Drosophila yakuba Dyak\GE19881 Drosophila ananassae Dana\GF23936 Drosophila pseudoobscura pseudoobscura Dpse\GA22147 Drosophila persimilis Dper\GL20852 Drosophila willistoni Dwil\sina Drosophila virilis Dvir\sina Drosophila mojavensis Dmoj\GI12443 Drosophila grimshawi Dgri\GH16597
Stocks & Reagents
Stocks Listed in FlyBase ( 18 )
Bloomington	30931 w*; P{UAS-sina.myc}2 30932 P{UAS-sina.myc}1, w* 30930 w*; P{UAS-sina.ΔRING.myc}2/CyO 5780 st1 sina3/TM6B, Tb1 40842 y1 v1; P{TRiP.HMS02008}attP40 26268 sinaP21 P{neoFRT}80B/TM6B, Tb1 30715 w*; Sin3Ae64/CyO, P{GMR-sina.N}2 30716 w*; lillixs407/CyO, P{GMR-sina.N}2 26270 w*; sina3 P{neoFRT}80B/TM3, Sb1
Kyoto	108422 st1 sina3/TM6B, Tb1
VDRC	v100691 P{KK107603}VIE-260B v50178 w1118; P{GD1532}v50178/TM3
	More stocks available...
Genomic Clones ( 1 )
	BACR48E21 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 92 )
	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	HL08111
Other clones	DPiM_HL08111
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT03661 HL03165 LD04181 LD06143 LD09052 LD10350 LD11013 LD12864 LD21427 LD25093 LD32642 LD39117 LD40520 LD46218 RE01066 RE10890 RE18956 RE22649 RE24923 RE39337 RE44435 RE46169 RE47434 RE47533 RE50573 RE55129 RE59388 RE65358 RH49636
Other clones	13108 17901 17965 36876 38770 44522 45107 53335 55946 55970 58690 62295 108440 123422 156332 161809 164817 214353.48 214541.21 527160 569767 bs23g08 CK01.8A.G4 CK01.31C.G10 CK01.36B.H3 CK01.51A.E5 CK01.87A.E11 CK01.94D.D5 CK01.96D.C8 EC14173 EK010958 EK030923 EK032206 EK063119 EK068520 EK073815 EK075144 EK114713 EK126206 EK129843 EK147910 EK159837 EK160956 EK171533 EK174901 EK181134 EK184022 EK188114 EK190951 EK246350 EK266094 EK270636 EK291023 EK306909 EN07360 EN15552 EP03910 EP17814 FGM102A05 LD30265 RE01426
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0003410 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39884
Antibody Information
	monoclonal, polyclonal (Carthew and Rubin, 1990)
Other Information
Discoverer
	Carthew, 1988.
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: sina anon-EST:fe2H7 (Bayraktaroglu, 2000.11.2)
Additional comments
Other Comments
	CG13030 shares 45% amino acid identity with sina, a ring finger domain of the C3HC4 type and the same protein binding partners. The results of pathway analysis, together with the shared domain organisation, suggest that CG13030 may overlap with sina as a regulator of photoreceptor differentiation. (Giot et al., 2003) sina is involved in external sensory organ development. (Pi et al., 2001) msi and sina function redundantly in R1 and R6 to down-regulate ttk in the developing photoreceptor cells. (Hirota et al., 1999) sina binds to Hsap\DCC, as shown in yeast two-hybrid studies and in vitro binding and immunoprecipitation studies. (Hu et al., 1997) Down-regulation of ttk protein expression in developing photoreceptor cells requires the presence of the phyl and sina proteins. (Li et al., 1997) Expression of the ttk TTK88 protein isoform represses neuronal fate determination in the developing eye. phyl protein acts to antagonise this repression by a mechanism that requires sina protein. (Tang et al., 1997) phyl interacts with another nuclear factor, sina, to form a complex and both factors are involved in upregulating transcription of pros in the eye. (Kauffmann et al., 1996) Murine homologues of sina have been identified. (Della et al., 1993) sina function is required for the transformation of cone cells into R7 cells that is caused by the expression of svp in the pattern of sev. (Hiromi et al., 1993) sev and sina act in a pathway required for neuronal development, rather than R7 cell fate per se. (Dickson et al., 1992) The phl serine/threonine kinase plays a crucial role in the R7 pathway: genetic evidence suggests that phl acts downstream of Ras85D and upstream of sina in this signal transduction pathway. (Dickson et al., 1992) Some aspect of R7 differentiation is independent of the genetic pathway involving sev, boss and sina as some P{HZ}klgH214 expression is present in R7 of sina mutants. (Mlodzik et al., 1992) In contrast to D.melanogaster, where the sina gene is located within an intron of Rh4, Dvir\sina and Dvir\Rh4 are widely separated in D.virilis. This different structural arrangement may have been caused by the translocation of the Dvir\Rh4 gene to a different chromosomal location by a retrotransposition event in D.virilis. (Neufeld et al., 1991) sina has been identified and characterised. The sina gene product acts early in the specification of the R7 photoreceptor cell, at the time when R7 receives and interprets developmental signals from neighbouring cells. It may act by regulating gene expression. Function of the sina gene is only required in R7 for correct R7 cell development. The sina transcription unit is located completely within the intron of Rh4 and is orientated in the opposite direction to Rh4. (Carthew and Rubin, 1990)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057377 NM_168689 RefSeq (Proteins) • NP_476725 NP_730206 DDBJ / EMBL / GenBank • AA433273 AA697793 AA736171 AAA28901 AAF49403 AAL25397 AAN11744 AC006933 AI518942 AI946339 AY060358 BH146159 M38384 Entrez Gene - A searchable database of RefSeq genes. • 39884 UniProtKB/Swiss-Prot • P21461
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Seven-in-absentia protein, TRAF-like domain (IPR018121) Zinc finger, RING-type (IPR001841) Seven-in-absentia protein, sina (IPR004162) TRAF-like (IPR008974) Zinc finger, SIAH-type (IPR013010) SIAH-type domain (IPR013323) Zinc finger, RING/FYVE/PHD-type (IPR013083) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • HL08111
Linkouts
	BioGRID - A database of protein and genetic interactions • 65183 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003410 DroID - A comprehensive database of gene and protein interactions. • FBgn0003410 DRSC - Results from RNAi screens. • FBgn0003410 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003410 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9949-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0003410 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39884 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /newgene/sina.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39884 modMine - Data generated by the modENCODE project. • FBgn0003410
Synonyms & Secondary IDs ( 12 )
Reported As
Symbol Synonym	anon-EST:fe2H7   CG9949 (Juhola et al., 2000, Carthew, 2000.7.12, Keleman et al., 2009.8.5, Bhutkar et al., 2007, Ying et al., 2011, Ni et al., 2010.12.1) sia (Bonacum et al., 2001) Sina (Sundaram, 2005, Cooper, 2007, Pi et al., 2008, Alexandre et al., 2008, Voas and Rebay, 2004, Bajpe et al., 2008, Copeland et al., 2007, Ying et al., 2011) sina (Zheng and Carthew, 2008, Li et al., 2002, Cooper et al., 2008, Shi and Noll, 2009, Bao and Friedrich, 2009, Toku et al., 2011, Chang et al., 2008, Nagaraj and Banerjee, 2009, Birkholz et al., 2009, Dworkin et al., 2009, Siddall et al., 2009, Liebl and Featherstone, 2005, Richardson, 2010.6.8, Bhutkar et al., 2007, Richardson, 2010.6.22, Seong et al., 2011, Japanese National Institute of Genetics, 2012.5.21, Mavromatakis and Tomlinson, 2012) SINA (Tang et al., 2008, Bajpe et al., 2008) unnamed (Schmid and Tautz, 1997)
Name Synonym	anon-fast-evolving-2H7   Seven in absenti (Voas and Rebay, 2004) seven in absentia (Bao and Friedrich, 2009, Mavromatakis and Tomlinson, 2012) SEVEN-IN-ABSENTIA (Tang et al., 2008) seven-in-absentia (Cooper, 2007)
Secondary FlyBase IDs
	FBgn0025204
References ( 165 )
Generate a list of	All references relating to this gene ( 165 )
List References by type	Research paper  ( 79 ) Supplementary material  ( 5 ) Review  ( 36 ) Erratum  ( 1 ) Personal communication to FlyBase  ( 15 ) Abstract  ( 20 ) FlyBase analysis  ( 2 ) Stock list  ( 1 ) Letter  ( 1 ) Protein sequence record  ( 1 ) Website  ( 1 ) Book  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers ( 5 )
	Mavromatakis and Tomlinson, 2012, Proc. Natl. Acad. Sci. U.S.A. 109(10): 3844--3849 The role of the small GTPase Rap in Drosophila R7 photoreceptor specification. [FBrf0217658] Oliveira et al., 2012, Molec. Phylog. Evol. 64(3): 533--544 Monophyly, divergence times, and evolution of host plant use inferred from a revised phylogeny of the Drosophila repleta species group. [FBrf0218731] Seong et al., 2011, Biogerontology 12(2): 93--107 Genome-wide analysis of low-dose irradiated male Drosophila melanogaster with extended longevity. [FBrf0213307] Toku et al., 2011, Comput. Biol. Chem. 35(5): 282--292 Reconstruction and crosstalk of protein-protein interaction networks of Wnt and Hedgehog signaling in Drosophila melanogaster. [FBrf0216393] Ying et al., 2011, PLoS ONE 6(9): e23863 Comprehensively Surveying Structure and Function of RING Domains from Drosophila melanogaster. [FBrf0215242] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...