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Gene Dmel\sqd

General Information
Symbol	Dmel\sqd	Species	D. melanogaster
Name	squid	Annotation symbol	CG16901
Feature type	protein_coding_gene	FlyBase ID	FBgn0263396
Gene Model Status	Current	Stock availability	12 publicly available
Also Known As	hrp40, l(3)j4B4, Squid, RRM3
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	87F5-87F6	Sequence location	3R:9,460,584..9,472,026 [-]
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 squid is referred to in FlyBase by the symbol Dmel\sqd (CG16901, FBgn0263396). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: mRNA binding. There is experimental evidence for 12 unique biological process terms, many of which group under: single-organism developmental process; localization; cellular component organization or biogenesis; anterior/posterior axis specification; biological regulation; regulation of RNA splicing; regulation of RNA metabolic process; establishment or maintenance of polarity of follicular epithelium; multicellular organism reproduction; oocyte anterior/posterior axis specification. 39 alleles are reported. The phenotypes of these alleles are annotated with: spermatogonium; chorion; interommatidial bristle; egg; oocyte; egg operculum; dorsal appendage; ventral furrow. It has 5 annotated transcripts and 5 annotated polypeptides. Protein features are: Nucleotide-binding, alpha-beta plait; RNA recognition motif domain. Gene sequence location is 3R:9460584..9472026.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 87F5-87F6   Limits computationally determined from genome sequence between P{PZ}CtBP03463 and P{lacW}B52s2249&P{lacW}flflL4179
Experimentally Determined Cytological Location
Cytogenetic map Notes References 87F2-87F3   (determined by in situ hybridisation) 87F3--4 (determined by in situ hybridisation)   (Spradling et al., 1999) 87F3-87F4   (determined by in situ hybridisation) 87F2--3 (determined by in situ hybridisation)   (Perrimon et al., 1996) 87F3-87F4     (BDGP Project Members, 1994-1999) 87F-87F   (determined by in situ hybridisation)   (Kelley, 1993) 87F-87F   (determined by in situ hybridisation)   (Matunis et al., 1992) 87F4-87F10   (determined by in situ hybridisation)   (Kelley, 1992)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\sqd 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 5.47 Low-frequency RNA-Seq exon junction(s) not annotated. Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) sqd-RA FBtr0082854  NM_169529   5551   321 sqd-RB FBtr0082855  NM_169528   2115   344 sqd-RC FBtr0082856  NM_143952   2239   308 sqd-RD FBtr0082857  NM_206481   1983   178 sqd-RE FBtr0309094  NM_001260159   2844   308
Additional Transcript Data & Comments
Reported size (kB)	4.8, 3.5, 2.3, 1.9, 1.7, 1.5 (northern blot) (Kelley, 1993)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein sqd-PA   FBpp0082319   35.0   321   6.54     NP_731826   AAF54964 sqd-PB   FBpp0082320   36.2   344   7.62     NP_731825   AAF54963 sqd-PC   FBpp0082321   33.1   308   6.96     NP_652209   AAN13570 sqd-PD   FBpp0089309   18.3   178   9.97     NP_996203   AAS65146 sqd-PE   FBpp0301102   33.1   308   6.96     NP_001247088   AFH06406
Additional Polypeptide Data & Comments
Reported size (kDa)	345, 321 (aa); 40 (kD observed); 36, 35 (kD predicted) (Matunis et al., 1992) 321, 308 (aa) (Kelley, 1993) 40 (kD observed) (Matunis et al., 1992)
Comments	sqd protein has two amino-terminal RNP-CS RNA-binding domains and a carboxy-terminal glycine-rich auxiliary domain. (Matunis et al., 1992, Matunis et al., 1992) hnRNP-specific mAbs were obtained and used to purify hnRNP complexes from S2 cells. hnRNP proteins were identified on the basis of nucleoplasmic localization, association with nascent transcripts, crosslinking to poly(A)-containing RNA in living cells, and amino acid sequence. Staining of polytene chromosomes reveals that sqd protein is associated with actively transcribing loci. (Matunis et al., 1992, Matunis et al., 1992)
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • RNA recognition motif domain (IPR000504) Nucleotide-binding, alpha-beta plait (IPR012677)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA201415   AA202270   AA202458   AA202666   AA246282   AA246607   AA246877   AA264842   AA264867   AA264928   AA264942   AA390435   AA390595   AA390689   AA390972   AA391566   AA391583   AA392187   AA392333   AA392893   AA439002   AA439641   AA439700   AA440283   AA440353   AA441121   AA441154   AA441634   AA538773   AA541243   AA696732   AA698813   AA801875   AA802095   AA802391   AA802548   AA802610   AA816339   AA816784   AA820130   AA821013   AA940588   AA940675   AA942304   AA942415   AA949460   AA950361   AA950386   AA951322   AA951496   AA952277   AE014297 AAF54963   AE014297 AAF54964   AE014297 AAN13570   AE014297 AAS65146   AE014297 AFH06406   AI063527   AI108821   AI135335   AI238292   AI239153   AI257981   AI259148   AI293344   AI295398   AI389050   AI404245   AI455041   AI512756   AI514607   AI514647   AI514806   AI515121   AI516263   AI516409   AI516717   AI516912   AI519107   AI519766   AI519909   AI520340   AI520342   AI534676   AI534846   AI542808   AI543069   AI546091   AI946265   AI947163   AQ025143   AQ026331   AQ034130   AQ073021   AQ073075   AQ073154   AQ254622   AQ254681   AW941937   AW942080   AW942084   AY069386 AAL39531   AY070527 AAL47998   AY118501 AAM49870   BF486415   BF488428   BF493136   BG637727   BG638009   BG638558   BG638655   BG640160   BG641328   BI162797   BI162954   BI164087   BI164692   BI164712   BI164890   BI165203   BI165288   BI166403   BI166769   BI167853   BI168263   BI168305   BI169652   BI169910   BI171311   BI171603   BI172252   BI172426   BI172831   BI173463   BI173586   BI173756   BI173865   BI212123   BI213076   BI213204   BI214022   BI215308   BI216318   BI216342   BI216401   BI227899   BI228260   BI229591   BI231363   BI234372   BI235121   BI235201   BI235253   BI236632   BI236801   BI237599   BI237987   BI238057   BI239044   BI239119   BI239183   BI239449   BI239761   BI239873   BI239926   BI240100   BI240455   BI240683   BI240775   BI240984   BI241260   BI241890   BI241960   BI242025   BI242028   BI242716   BI243299   BI355384   BI355445   BI356107   BI356108   BI357060   BI357296   BI358228   BI358474   BI361607   BI361769   BI362284   BI362581   BI362636   BI362832   BI362934   BI362945   BI363733   BI363734   BI363750   BI364181   BI365765   BI366032   BI366033   BI366047   BI366498   BI366598   BI367921   BI367922   BI368056   BI369350   BI369706   BI370626   BI371281   BI371472   BI371949   BI372411   BI373267   BI373508   BI375519   BI375789   BI481834   BI481962   BI482029   BI483898   BI483956   BI484730   BI486072   BI486604   BI486707   BI486818   BI563744   BI564823   BI567640   BI567796   BI568527   BI568552   BI570567   BI570971   BI571734   BI572172   BI572434   BI572512   BI574523   BI577249   BI577751   BI577873   BI579286   BI579528   BI579831   BI579977   BI580126   BI582490   BI587032   BI588863   BI591999   BI592499   BI592870   BI593223   BI593307   BI605729   BI605759   BI607278   BI607299   BI607931   BI609559   BI609656   BI611659   BI611725   BI612303   BI612488   BI612866   BI613052   BI613302   BI613407   BI615551   BI616807   BI617042   BI620865   BI621499   BI622236   BI622437   BI625003   BI625392   BI626253   BI629771   BI630832   BI634531   BI634758   BI635104   BI636301   BI636804   BI636976   BI639609   BI639627   BI640261   BI640288   BI641324   BI641433   BP540926   BP542132   BP548699   BP548700   BP549026   BP550735   BP550736   BP555761   BP555762   BP557056   BP557057   BP558030   BP558031   BP558636   BP558637   BP559630   BP559631   BQ102878   BQ102962   BQ103200   BQ103253   BQ103642   BT001384 AAN71139   BT003283 AAO25040   BT023832   BT120342   BT120344   CK657954   CO153377   CO154386   CO176847   CO177790   CO178642   CO178880   CO179096   CO179481   CO181890   CO183733   CO187091   CO187941   CO188570   CO188883   CO189330   CO189491   CO189724   CO190323   CO190770   CO191072   CO191378   CO196188   CO196280   CO196292   CO262231   CO264358   CO264367   CO264680   CO264727   CO264920   CO265489   CO265561   CO265792   CO266051   CO266401   CO266516   CO266628   CO266751   CO266840   CO267258   CO267709   CO268413   CO268469   CO269273   CO269330   CO269448   CO269544   CO269778   CO269870   CO270514   CO270569   CO270649   CO270819   CO271124   CO271524   CO272422   CO272574   CO272770   CO273406   CO273410   CO273580   CO274185   CO274450   CO275303   CO275306   CO275898   CO276037   CO276516   CO276627   CO277544   CO277859   CO278064   CO278490   CO278525   CO278623   CO279204   CO280362   CO280594   CO280731   CO280846   CO281509   CO281717   CO282142   CO282621   CO282984   CO283334   CO283504   CO284128   CO284663   CO284746   CO286135   CO286560   CO286590   CO286636   CO286640   CO286707   CO287239   CO287792   CO287890   CO288528   CO288759   CO288888   CO289090   CO289191   CO289193   CO289461   CO289721   CO290199   CO290431   CO290472   CO290906   CO291755   CO292097   CO292200   CO292696   CO292838   CO293272   CO293358   CO293805   CO293904   CO294093   CO294266   CO295623   CO296383   CO296474   CO296724   CO297299   CO298298   CO298668   CO298701   CO299316   CO299458   CO299618   CO300441   CO301851   CO301958   CO302382   CO303091   CO303179   CO303197   CO303567   CO303745   CO304157   CO304270   CO304629   CO305440   CO306371   CO306513   CO307219   CO307633   CO308712   CO308894   CO309017   CO309885   CO309924   CO310250   CO310284   CO310468   CO310471   CO310904   CO311195   CO312594   CO312823   CO313080   CO313472   CO313791   CO314087   CO314280   CO314306   CO314621   CO314815   CO314972   CO315065   CO315626   CO315725   CO316882   CO317071   CO318147   CO318422   CO318577   CO318727   CO319296   CO319748   CO319881   CO320344   CO320975   CO321177   CO321620   CO321841   CO321861   CO322461   CO322483   CO322517   CO322656   CO323109   CO323123   CO323630   CO323802   CO324345   CO324620   CO324894   CO324922   CO325100   CO326032   CO327273   CO327373   CO327439   CO327671   CO327693   CO327862   CO327871   CO327903   CO328240   CO328412   CO328443   CO329846   CO330104   CO330228   CO330471   CO331011   CO331060   CO331396   CO331503   CO331528   CO331601   CO333012   CO333456   CO333741   CO335543   CO336236   CO337313   CO337410   CO337859   CO338196   CO338277   CO339019   CO339364   CO339617   CO339884   CO340431   CO341149   CO341559   CO343793   CO344060   CZ469525   CZ479227   CZ481242   CZ481243   CZ484430   CZ485944   DN153931   DN154073   DN154253   EC056689   EC056742   EC056849   EC057001   EC057261   EC058423   EC059454   EC060044   EC060079   EC060393   EC060494   EC060598   EC061040   EC062294   EC063252   EC063368   EC063836   EC064052   EC064264   EC064659   EC065014   EC065840   EC065914   EC066404   EC066595   EC066984   EC067382   EC067683   EC067754   EC069466   EC069589   EC070074   EC070241   EC070996   EC072824   EC072872   EC073615   EC073908   EC074379   EC075847   EC075955   EC076117   EC076506   EC076887   EC076930   EC077224   EC077548   EC078958   EC079064   EC079608   EC079840   EC080284   EC080454   EC080847   EC081185   EC081480   EC081765   EC082147   EC082400   EC082561   EC082683   EC082728   EC082893   EC083533   EC083839   EC084172   EC084588   EC084814   EC085977   EC086001   EC086504   EC087521   EC087630   EC088380   EC089379   EC089784   EC089884   EC089927   EC089996   EC090392   EC194745   EC195192   EC195333   EC195558   EC196206   EC196247   EC196297   EC196316   EC196747   EC196960   EC197231   EC197747   EC198042   EC198254   EC198625   EC198880   EC198994   EC199056   EC199374   EC199408   EC199581   EC199687   EC199953   EC200030   EC200404   EC200487   EC200893   EC201065   EC201182   EC201252   EC201749   EC202541   EC202784   EC202819   EC202901   EC203172   EC203586   EC203829   EC203915   EC203987   EC204189   EC204891   EC204917   EC205584   EC205610   EC205965   EC206435   EC206450   EC206767   EC206980   EC207547   EC208111   EC208213   EC208473   EC209133   EC209365   EC209444   EC209859   EC210043   EC210141   EC210294   EC210468   EC210815   EC211407   EC212670   EC212785   EC212790   EC212863   EC213042   EC213782   EC214321   EC214376   EC214692   EC215261   EC215558   EC215675   EC215711   EC216713   EC216722   EC218156   EC218218   EC218386   EC219106   EC219142   EC219187   EC219215   EC219861   EC219919   EC220049   EC220507   EC220547   EC221016   EC221973   EC222018   EC222103   EC222168   EC222258   EC222322   EC222501   EC223579   EC223855   EC224004   EC224144   EC224490   EC224784   EC224915   EC224987   EC224997   EC225109   EC225512   EC225575   EC225712   EC226007   EC226009   EC227054   EC227231   EC227449   EC227723   EC227762   EC227989   EC228031   EC228066   EC228265   EC228605   EC229957   EC230429   EC231043   EC231440   EC231781   EC232687   EC232695   EC233811   EC235132   EC235194   EC235570   EC235624   EC236218   EC236840   EC236960   EC237116   EC237194   EC237223   EC237797   EC238268   EC238528   EC238627   EC238757   EC239114   EC239542   EC239605   EC239623   EC240286   EC241683   EC241866   EC242340   EC242420   EC242523   EC243519   EC243694   EC244363   EC244537   EC245419   EC245587   EC245640   EC246210   EC247933   EC249193   EC249230   EC249631   EC249788   EC251295   EC253208   EC253238   EC254492   EC254628   EC254768   EC255283   EC255422   EC255713   EC255769   EC256224   EC256785   EC256886   EC257124   EC257379   EC257638   EC257712   EC257850   EC258053   EC258092   EC258095   EC258107   EC258291   EC258543   EC259944   EC262311   EC263277   EC263646   EC264640   EC266535   EC266766   EC266994   EC267055   EC267115   EC267905   EC267994   EL883432   EL883433   EV575079   EV575505   EV576182   EV576886   EV577215   EV578837   EV579696   EV579766   EV581004   EV581743   EV582543   EV583665   EV584136   EV584244   EV587891   EV594186   EV595360   EV600297   FF579561   S51693 AAB24624   S61875 AAB26988   S62100 AAB26989   X62637 CAA44503   X62638 CAA44504
UniProtKB/Swiss-Prot	Q08473
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 | intense & ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | intense & ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | intense & ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | intense & ubiquitous   (Fisher et al., 2012) embryonic stage 13 -- 16   organism | intense & ubiquitous   (Fisher et al., 2012) embryonic/larval midgut   (Fisher et al., 2012) northern blot Stage Tissue/Position (including subcellular localization) Reference adult stage | female     (Kelley, 1993) oogenesis & adult stage | female   ovary   (Kelley, 1993) RT-PCR Stage Tissue/Position (including subcellular localization) Reference oogenesis stage S8 -- S14 & adult stage | female   egg chamber   (Van Buskirk and Schupbach, 2002) oogenesis   egg chamber   (Van Buskirk and Schupbach, 2002)
Additional Descriptive Data
	1.9kb sqd transcripts are expressed predominantly in ovaries. (Kelley, 1993) 1.5kb sqd transcripts are expressed predominantly in ovaries. (Kelley, 1993) 2.3kb sqd transcripts are expressed predominantly in non-ovarian tissues. (Kelley, 1993)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy Stage Tissue/Position (including subcellular localization) Reference day 7 of adulthood -- day 49 of adulthood   adult heart   (Cammarato et al., 2011) western blot Stage Tissue/Position (including subcellular localization) Reference adult stage | female   ovary   (Goodrich et al., 2004)
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
catalytic step 2 spliceosome inferred from direct assay (Herold et al., 2009) chromatin inferred from direct assay (Prasanth et al., 2000) NOT nucleolus inferred from direct assay (Matunis et al., 1992) nucleus inferred from direct assay (Matunis et al., 1992, Prasanth et al., 2000) omega speckle inferred from direct assay (Prasanth et al., 2000) polytene chromosome puff inferred from direct assay (Matunis et al., 1992, Ji and Tulin, 2009) precatalytic spliceosome inferred from direct assay (Herold et al., 2009)
Expression Deduced from Reporters
Reporter: P{PZ}sqd00048 Stage Tissue/Position (including subcellular localization) Reference oogenesis & adult stage | female   ovary   (Kelley, 1993) adult stage | female & oogenesis   germline cell   (Kelley, 1993)
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 (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 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    224 central nervous system, larvae L3    282 central nervous system, pupae P8    142 head, virgin 1-day female    120 head, virgin 4-day female    111 head, virgin 20-day female    57 head, mated 1-day female    107 head, mated 4-day female    103 head, mated 20-day female    74 head, mated 1-day male    90 head, mated 4-day male    124 head, mated 20-day male    104 salivary gland, larvae L3 wandering    26 salivary gland, white prepupae    32 digestive system, larvae L3 wandering    88 digestive system, 1-day adult    80 digestive system, 4-day adult    154 digestive system, 20-day adult    77 fat body, larvae L3 wandering    41 fat body, white prepupae    68 fat body, pupae P8    72 carcass, larvae L3 wandering    186 carcass, 1-day adult    82 carcass, 4-day adult    129 carcass, 20-day adult    85 ovary, virgin 4-day female    346 ovary, mated 4-day female    405 testis, mated 4-day male    24 accessory gland, mated 4-day male    72 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  (224) central nervous system, larvae L3  (282) central nervous system, pupae P8  (142) head, virgin 1-day female  (120) head, virgin 4-day female  (111) head, virgin 20-day female  (57) head, mated 1-day female  (107) head, mated 4-day female  (103) head, mated 20-day female  (74) head, mated 1-day male  (90) head, mated 4-day male  (124) head, mated 20-day male  (104) salivary gland, larvae L3 wandering  26 salivary gland, white prepupae  (32) digestive system, larvae L3 wandering  (88) digestive system, 1-day adult  (80) digestive system, 4-day adult  (154) digestive system, 20-day adult  (77) fat body, larvae L3 wandering  (41) fat body, white prepupae  (68) fat body, pupae P8  (72) carcass, larvae L3 wandering  (186) carcass, 1-day adult  (82) carcass, 4-day adult  (129) carcass, 20-day adult  (85) ovary, virgin 4-day female  (346) ovary, mated 4-day female  (405) testis, mated 4-day male    24 accessory gland, mated 4-day male  (72) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (224) central nervous system, larvae L3  (282) central nervous system, pupae P8  (142) head, virgin 1-day female  (120) head, virgin 4-day female  (111) head, virgin 20-day female    57 head, mated 1-day female  107 head, mated 4-day female  103 head, mated 20-day female    74 head, mated 1-day male    90 head, mated 4-day male  (124) head, mated 20-day male  104 salivary gland, larvae L3 wandering    26 salivary gland, white prepupae    32 digestive system, larvae L3 wandering    88 digestive system, 1-day adult    80 digestive system, 4-day adult  (154) digestive system, 20-day adult    77 fat body, larvae L3 wandering    41 fat body, white prepupae    68 fat body, pupae P8    72 carcass, larvae L3 wandering  (186) carcass, 1-day adult    82 carcass, 4-day adult  (129) carcass, 20-day adult    85 ovary, virgin 4-day female  (346) ovary, mated 4-day female  (405) testis, mated 4-day male    24 accessory gland, mated 4-day male    72 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    224 central nervous system, larvae L3    282 central nervous system, pupae P8    142 head, virgin 1-day female    120 head, virgin 4-day female    111 head, virgin 20-day female    57 head, mated 1-day female    107 head, mated 4-day female    103 head, mated 20-day female    74 head, mated 1-day male    90 head, mated 4-day male    124 head, mated 20-day male    104 salivary gland, larvae L3 wandering    26 salivary gland, white prepupae    32 digestive system, larvae L3 wandering    88 digestive system, 1-day adult    80 digestive system, 4-day adult    154 digestive system, 20-day adult    77 fat body, larvae L3 wandering    41 fat body, white prepupae    68 fat body, pupae P8    72 carcass, larvae L3 wandering    186 carcass, 1-day adult    82 carcass, 4-day adult    129 carcass, 20-day adult    85 ovary, virgin 4-day female    346 ovary, mated 4-day female    405 testis, mated 4-day male    24 accessory gland, mated 4-day male    72 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    224 central nervous system, larvae L3    282 central nervous system, pupae P8    142 head, virgin 1-day female    120 head, virgin 4-day female    111 head, virgin 20-day female    57 head, mated 1-day female    107 head, mated 4-day female    103 head, mated 20-day female    74 head, mated 1-day male    90 head, mated 4-day male    124 head, mated 20-day male    104 salivary gland, larvae L3 wandering    26 salivary gland, white prepupae    32 digestive system, larvae L3 wandering    88 digestive system, 1-day adult    80 digestive system, 4-day adult    154 digestive system, 20-day adult    77 fat body, larvae L3 wandering    41 fat body, white prepupae    68 fat body, pupae P8    72 carcass, larvae L3 wandering    186 carcass, 1-day adult    82 carcass, 4-day adult    129 carcass, 20-day adult    85 ovary, virgin 4-day female    346 ovary, mated 4-day female    405 testis, mated 4-day male    24 accessory gland, mated 4-day male    72 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  (224) central nervous system, larvae L3  (282) central nervous system, pupae P8  (142) head, virgin 1-day female  (120) head, virgin 4-day female  (111) head, virgin 20-day female  (57) head, mated 1-day female  (107) head, mated 4-day female  (103) head, mated 20-day female  (74) head, mated 1-day male  (90) head, mated 4-day male  (124) head, mated 20-day male  (104) salivary gland, larvae L3 wandering  26 salivary gland, white prepupae  32 digestive system, larvae L3 wandering  (88) digestive system, 1-day adult  (80) digestive system, 4-day adult  (154) digestive system, 20-day adult  (77) fat body, larvae L3 wandering  (41) fat body, white prepupae  (68) fat body, pupae P8  (72) carcass, larvae L3 wandering  (186) carcass, 1-day adult  (82) carcass, 4-day adult  (129) carcass, 20-day adult  (85) ovary, virgin 4-day female  (346) ovary, mated 4-day female  (405) testis, mated 4-day male    24 accessory gland, mated 4-day male  (72) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (224) central nervous system, larvae L3  (282) central nervous system, pupae P8  142 head, virgin 1-day female  120 head, virgin 4-day female  111 head, virgin 20-day female    57 head, mated 1-day female  107 head, mated 4-day female  103 head, mated 20-day female    74 head, mated 1-day male    90 head, mated 4-day male  124 head, mated 20-day male  104 salivary gland, larvae L3 wandering    26 salivary gland, white prepupae    32 digestive system, larvae L3 wandering    88 digestive system, 1-day adult    80 digestive system, 4-day adult  (154) digestive system, 20-day adult    77 fat body, larvae L3 wandering    41 fat body, white prepupae    68 fat body, pupae P8    72 carcass, larvae L3 wandering  (186) carcass, 1-day adult    82 carcass, 4-day adult  129 carcass, 20-day adult    85 ovary, virgin 4-day female  (346) ovary, mated 4-day female  (405) testis, mated 4-day male    24 accessory gland, mated 4-day male    72 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    224 central nervous system, larvae L3    282 central nervous system, pupae P8    142 head, virgin 1-day female    120 head, virgin 4-day female    111 head, virgin 20-day female    57 head, mated 1-day female    107 head, mated 4-day female    103 head, mated 20-day female    74 head, mated 1-day male    90 head, mated 4-day male    124 head, mated 20-day male    104 salivary gland, larvae L3 wandering    26 salivary gland, white prepupae    32 digestive system, larvae L3 wandering    88 digestive system, 1-day adult    80 digestive system, 4-day adult    154 digestive system, 20-day adult    77 fat body, larvae L3 wandering    41 fat body, white prepupae    68 fat body, pupae P8    72 carcass, larvae L3 wandering    186 carcass, 1-day adult    82 carcass, 4-day adult    129 carcass, 20-day adult    85 ovary, virgin 4-day female    346 ovary, mated 4-day female    405 testis, mated 4-day male    24 accessory gland, mated 4-day male    72 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 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    103 embryo 02-04hr    191 embryo 04-06hr    243 embryo 06-08hr    184 embryo 08-10hr    141 embryo 10-12hr    103 embryo 12-14hr    118 embryo 14-16hr    66 embryo 16-18hr    69 embryo 18-20hr    38 embryo 20-22hr    68 embryo 22-24hr    69 larva L1    65 larva L2    79 larva L3 12hr old    57 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    51 larva L3 puffstage 7-9    63 white prepupae new    65 white prepupae 12hr    44 white prepupae 24hr    61 pupae 2d postWPP    44 pupae 3d postWPP    26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day    53 adult female 05day    96 adult female 30day    87 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (103) embryo 02-04hr  (191) embryo 04-06hr  (243) embryo 06-08hr  (184) embryo 08-10hr  (141) embryo 10-12hr  (103) embryo 12-14hr  (118) embryo 14-16hr  (66) embryo 16-18hr  (69) embryo 18-20hr  (38) embryo 20-22hr  (68) embryo 22-24hr  (69) larva L1  (65) larva L2  (79) larva L3 12hr old  (57) larva L3 puffstage 1-2  26 larva L3 puffstage 3-6  (51) larva L3 puffstage 7-9  (63) white prepupae new  (65) white prepupae 12hr  (44) white prepupae 24hr  (61) pupae 2d postWPP  (44) pupae 3d postWPP  26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day  (53) adult female 05day  (96) adult female 30day  (87) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  103 embryo 02-04hr  (191) embryo 04-06hr  (243) embryo 06-08hr  (184) embryo 08-10hr  (141) embryo 10-12hr  103 embryo 12-14hr  (118) embryo 14-16hr    66 embryo 16-18hr    69 embryo 18-20hr    38 embryo 20-22hr    68 embryo 22-24hr    69 larva L1    65 larva L2    79 larva L3 12hr old    57 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    51 larva L3 puffstage 7-9    63 white prepupae new    65 white prepupae 12hr    44 white prepupae 24hr    61 pupae 2d postWPP    44 pupae 3d postWPP    26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day    53 adult female 05day    96 adult female 30day    87 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    103 embryo 02-04hr    191 embryo 04-06hr    243 embryo 06-08hr    184 embryo 08-10hr    141 embryo 10-12hr    103 embryo 12-14hr    118 embryo 14-16hr    66 embryo 16-18hr    69 embryo 18-20hr    38 embryo 20-22hr    68 embryo 22-24hr    69 larva L1    65 larva L2    79 larva L3 12hr old    57 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    51 larva L3 puffstage 7-9    63 white prepupae new    65 white prepupae 12hr    44 white prepupae 24hr    61 pupae 2d postWPP    44 pupae 3d postWPP    26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day    53 adult female 05day    96 adult female 30day    87 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    103 embryo 02-04hr    191 embryo 04-06hr    243 embryo 06-08hr    184 embryo 08-10hr    141 embryo 10-12hr    103 embryo 12-14hr    118 embryo 14-16hr    66 embryo 16-18hr    69 embryo 18-20hr    38 embryo 20-22hr    68 embryo 22-24hr    69 larva L1    65 larva L2    79 larva L3 12hr old    57 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    51 larva L3 puffstage 7-9    63 white prepupae new    65 white prepupae 12hr    44 white prepupae 24hr    61 pupae 2d postWPP    44 pupae 3d postWPP    26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day    53 adult female 05day    96 adult female 30day    87 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (103) embryo 02-04hr  (191) embryo 04-06hr  (243) embryo 06-08hr  (184) embryo 08-10hr  (141) embryo 10-12hr  (103) embryo 12-14hr  (118) embryo 14-16hr  (66) embryo 16-18hr  (69) embryo 18-20hr  (38) embryo 20-22hr  (68) embryo 22-24hr  (69) larva L1  (65) larva L2  (79) larva L3 12hr old  (57) larva L3 puffstage 1-2  26 larva L3 puffstage 3-6  (51) larva L3 puffstage 7-9  (63) white prepupae new  (65) white prepupae 12hr  (44) white prepupae 24hr  (61) pupae 2d postWPP  (44) pupae 3d postWPP  26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day  (53) adult female 05day  (96) adult female 30day  (87) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr  103 embryo 02-04hr  (191) embryo 04-06hr  (243) embryo 06-08hr  (184) embryo 08-10hr  141 embryo 10-12hr  103 embryo 12-14hr  118 embryo 14-16hr    66 embryo 16-18hr    69 embryo 18-20hr    38 embryo 20-22hr    68 embryo 22-24hr    69 larva L1    65 larva L2    79 larva L3 12hr old    57 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    51 larva L3 puffstage 7-9    63 white prepupae new    65 white prepupae 12hr    44 white prepupae 24hr    61 pupae 2d postWPP    44 pupae 3d postWPP    26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day    53 adult female 05day    96 adult female 30day    87 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    103 embryo 02-04hr    191 embryo 04-06hr    243 embryo 06-08hr    184 embryo 08-10hr    141 embryo 10-12hr    103 embryo 12-14hr    118 embryo 14-16hr    66 embryo 16-18hr    69 embryo 18-20hr    38 embryo 20-22hr    68 embryo 22-24hr    69 larva L1    65 larva L2    79 larva L3 12hr old    57 larva L3 puffstage 1-2    26 larva L3 puffstage 3-6    51 larva L3 puffstage 7-9    63 white prepupae new    65 white prepupae 12hr    44 white prepupae 24hr    61 pupae 2d postWPP    44 pupae 3d postWPP    26 pupae 4d postWPP    16 adult male 01day    23 adult male 05day    23 adult male 30day    20 adult female 01day    53 adult female 05day    96 adult female 30day    87 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 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+    466 Schneider line 2 Sg4    334 embryonic 1182-4H    231 embryonic GM2    392 embryonic Kc167    814 embryonic S1    263 embryonic S3    575 leg disc CME L1    335 wing disc CME-W2    420 wing disc ML-DmD8    405 wing disc ML-DmD9    191 wing disc ML-DmD16-c3    436 wing disc ML-DmD21    162 wing disc ML-DmD32    367 haltere disc ML-DmD17-c3    677 eye-antennal disc ML-DmD11    253 antennal disc ML-DmD20-c5    251 mixed discs ML-DmD4-c1    421 CNS ML-DmBG1-c1    354 CNS ML-DmBG2-c2    296 tumorous blood cells mbn2    457 ovary fGS/OSS    570 ovary OSC    543 ovary OSS    572 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (466) Schneider line 2 Sg4  (334) embryonic 1182-4H  (231) embryonic GM2  (392) embryonic Kc167  (814) embryonic S1  (263) embryonic S3  (575) leg disc CME L1  (335) wing disc CME-W2  (420) wing disc ML-DmD8  (405) wing disc ML-DmD9  (191) wing disc ML-DmD16-c3  (436) wing disc ML-DmD21  (162) wing disc ML-DmD32  (367) haltere disc ML-DmD17-c3  (677) eye-antennal disc ML-DmD11  (253) antennal disc ML-DmD20-c5  (251) mixed discs ML-DmD4-c1  (421) CNS ML-DmBG1-c1  (354) CNS ML-DmBG2-c2  (296) tumorous blood cells mbn2  (457) ovary fGS/OSS  (570) ovary OSC  (543) ovary OSS  (572) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (466) Schneider line 2 Sg4  (334) embryonic 1182-4H  (231) embryonic GM2  (392) embryonic Kc167  (814) embryonic S1  (263) embryonic S3  (575) leg disc CME L1  (335) wing disc CME-W2  (420) wing disc ML-DmD8  (405) wing disc ML-DmD9  (191) wing disc ML-DmD16-c3  (436) wing disc ML-DmD21  (162) wing disc ML-DmD32  (367) haltere disc ML-DmD17-c3  (677) eye-antennal disc ML-DmD11  (253) antennal disc ML-DmD20-c5  (251) mixed discs ML-DmD4-c1  (421) CNS ML-DmBG1-c1  (354) CNS ML-DmBG2-c2  (296) tumorous blood cells mbn2  (457) ovary fGS/OSS  (570) ovary OSC  (543) ovary OSS  (572) 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+    466 Schneider line 2 Sg4    334 embryonic 1182-4H    231 embryonic GM2    392 embryonic Kc167    814 embryonic S1    263 embryonic S3    575 leg disc CME L1    335 wing disc CME-W2    420 wing disc ML-DmD8    405 wing disc ML-DmD9    191 wing disc ML-DmD16-c3    436 wing disc ML-DmD21    162 wing disc ML-DmD32    367 haltere disc ML-DmD17-c3    677 eye-antennal disc ML-DmD11    253 antennal disc ML-DmD20-c5    251 mixed discs ML-DmD4-c1    421 CNS ML-DmBG1-c1    354 CNS ML-DmBG2-c2    296 tumorous blood cells mbn2    457 ovary fGS/OSS    570 ovary OSC    543 ovary OSS    572 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    466 Schneider line 2 Sg4    334 embryonic 1182-4H    231 embryonic GM2    392 embryonic Kc167    814 embryonic S1    263 embryonic S3    575 leg disc CME L1    335 wing disc CME-W2    420 wing disc ML-DmD8    405 wing disc ML-DmD9    191 wing disc ML-DmD16-c3    436 wing disc ML-DmD21    162 wing disc ML-DmD32    367 haltere disc ML-DmD17-c3    677 eye-antennal disc ML-DmD11    253 antennal disc ML-DmD20-c5    251 mixed discs ML-DmD4-c1    421 CNS ML-DmBG1-c1    354 CNS ML-DmBG2-c2    296 tumorous blood cells mbn2    457 ovary fGS/OSS    570 ovary OSC    543 ovary OSS    572 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (466) Schneider line 2 Sg4  (334) embryonic 1182-4H  (231) embryonic GM2  (392) embryonic Kc167  (814) embryonic S1  (263) embryonic S3  (575) leg disc CME L1  (335) wing disc CME-W2  (420) wing disc ML-DmD8  (405) wing disc ML-DmD9  (191) wing disc ML-DmD16-c3  (436) wing disc ML-DmD21  (162) wing disc ML-DmD32  (367) haltere disc ML-DmD17-c3  (677) eye-antennal disc ML-DmD11  (253) antennal disc ML-DmD20-c5  (251) mixed discs ML-DmD4-c1  (421) CNS ML-DmBG1-c1  (354) CNS ML-DmBG2-c2  (296) tumorous blood cells mbn2  (457) ovary fGS/OSS  (570) ovary OSC  (543) ovary OSS  (572) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+  (466) Schneider line 2 Sg4  (334) embryonic 1182-4H  (231) embryonic GM2  (392) embryonic Kc167  (814) embryonic S1  (263) embryonic S3  (575) leg disc CME L1  (335) wing disc CME-W2  (420) wing disc ML-DmD8  (405) wing disc ML-DmD9  (191) wing disc ML-DmD16-c3  (436) wing disc ML-DmD21  (162) wing disc ML-DmD32  (367) haltere disc ML-DmD17-c3  (677) eye-antennal disc ML-DmD11  (253) antennal disc ML-DmD20-c5  (251) mixed discs ML-DmD4-c1  (421) CNS ML-DmBG1-c1  (354) CNS ML-DmBG2-c2  (296) tumorous blood cells mbn2  (457) ovary fGS/OSS  (570) ovary OSC  (543) ovary OSS  (572) 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+    466 Schneider line 2 Sg4    334 embryonic 1182-4H    231 embryonic GM2    392 embryonic Kc167    814 embryonic S1    263 embryonic S3    575 leg disc CME L1    335 wing disc CME-W2    420 wing disc ML-DmD8    405 wing disc ML-DmD9    191 wing disc ML-DmD16-c3    436 wing disc ML-DmD21    162 wing disc ML-DmD32    367 haltere disc ML-DmD17-c3    677 eye-antennal disc ML-DmD11    253 antennal disc ML-DmD20-c5    251 mixed discs ML-DmD4-c1    421 CNS ML-DmBG1-c1    354 CNS ML-DmBG2-c2    296 tumorous blood cells mbn2    457 ovary fGS/OSS    570 ovary OSC    543 ovary OSS    572 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 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    107 cold shock, 4-day adult    82 heat shock, 4-day adult    131 Cadmium 50 mM 6 hrs, larvae L3    56 Cadmium 50 mM 12 hrs, larvae L3    88 Cadmium 50 mM 48 hrs, 4-day adult    157 Cadmium 100 mM 48 hrs, 4-day adult    306 Copper 0.5 mM 12 hrs, larvae L3    74 Copper 15 mM 48 hrs, 4-day adult    525 Zinc 5 mM 12 hrs, larvae L3    95 Zinc 4.5 mM 48 hrs, 4-day adult    259 Ethanol 2.5% 3 hrs, larvae L3    133 Ethanol 5% 3 hrs, larvae L3    68 Ethanol 10% 3 hrs, larvae L3    68 Caffeine 1.5 mg/ml 4 hrs, larvae L3    59 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    284 Caffeine 25 mg/ml 48 hrs, 4-day adult    172 Paraquat 5 mM 48 hrs, 4-day adult    223 Paraquat 10 mM 48 hrs, 4-day adult    118 Rotenone 2 μg 12 hrs, larvae L3    88 Rotenone 8 μg 12 hrs, larvae L3    40 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  (107) cold shock, 4-day adult  (82) heat shock, 4-day adult  (131) Cadmium 50 mM 6 hrs, larvae L3  (56) Cadmium 50 mM 12 hrs, larvae L3  (88) Cadmium 50 mM 48 hrs, 4-day adult  (157) Cadmium 100 mM 48 hrs, 4-day adult  (306) Copper 0.5 mM 12 hrs, larvae L3  (74) Copper 15 mM 48 hrs, 4-day adult  (525) Zinc 5 mM 12 hrs, larvae L3  (95) Zinc 4.5 mM 48 hrs, 4-day adult  (259) Ethanol 2.5% 3 hrs, larvae L3  (133) Ethanol 5% 3 hrs, larvae L3  (68) Ethanol 10% 3 hrs, larvae L3  (68) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (59) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (284) Caffeine 25 mg/ml 48 hrs, 4-day adult  (172) Paraquat 5 mM 48 hrs, 4-day adult  (223) Paraquat 10 mM 48 hrs, 4-day adult  (118) Rotenone 2 μg 12 hrs, larvae L3  (88) Rotenone 8 μg 12 hrs, larvae L3  (40) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult  107 cold shock, 4-day adult    82 heat shock, 4-day adult  (131) Cadmium 50 mM 6 hrs, larvae L3    56 Cadmium 50 mM 12 hrs, larvae L3    88 Cadmium 50 mM 48 hrs, 4-day adult  (157) Cadmium 100 mM 48 hrs, 4-day adult  (306) Copper 0.5 mM 12 hrs, larvae L3    74 Copper 15 mM 48 hrs, 4-day adult  (525) Zinc 5 mM 12 hrs, larvae L3    95 Zinc 4.5 mM 48 hrs, 4-day adult  (259) Ethanol 2.5% 3 hrs, larvae L3  (133) Ethanol 5% 3 hrs, larvae L3    68 Ethanol 10% 3 hrs, larvae L3    68 Caffeine 1.5 mg/ml 4 hrs, larvae L3    59 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (284) Caffeine 25 mg/ml 48 hrs, 4-day adult  (172) Paraquat 5 mM 48 hrs, 4-day adult  (223) Paraquat 10 mM 48 hrs, 4-day adult  (118) Rotenone 2 μg 12 hrs, larvae L3    88 Rotenone 8 μg 12 hrs, larvae L3    40 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    107 cold shock, 4-day adult    82 heat shock, 4-day adult    131 Cadmium 50 mM 6 hrs, larvae L3    56 Cadmium 50 mM 12 hrs, larvae L3    88 Cadmium 50 mM 48 hrs, 4-day adult    157 Cadmium 100 mM 48 hrs, 4-day adult    306 Copper 0.5 mM 12 hrs, larvae L3    74 Copper 15 mM 48 hrs, 4-day adult    525 Zinc 5 mM 12 hrs, larvae L3    95 Zinc 4.5 mM 48 hrs, 4-day adult    259 Ethanol 2.5% 3 hrs, larvae L3    133 Ethanol 5% 3 hrs, larvae L3    68 Ethanol 10% 3 hrs, larvae L3    68 Caffeine 1.5 mg/ml 4 hrs, larvae L3    59 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    284 Caffeine 25 mg/ml 48 hrs, 4-day adult    172 Paraquat 5 mM 48 hrs, 4-day adult    223 Paraquat 10 mM 48 hrs, 4-day adult    118 Rotenone 2 μg 12 hrs, larvae L3    88 Rotenone 8 μg 12 hrs, larvae L3    40 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    107 cold shock, 4-day adult    82 heat shock, 4-day adult    131 Cadmium 50 mM 6 hrs, larvae L3    56 Cadmium 50 mM 12 hrs, larvae L3    88 Cadmium 50 mM 48 hrs, 4-day adult    157 Cadmium 100 mM 48 hrs, 4-day adult    306 Copper 0.5 mM 12 hrs, larvae L3    74 Copper 15 mM 48 hrs, 4-day adult    525 Zinc 5 mM 12 hrs, larvae L3    95 Zinc 4.5 mM 48 hrs, 4-day adult    259 Ethanol 2.5% 3 hrs, larvae L3    133 Ethanol 5% 3 hrs, larvae L3    68 Ethanol 10% 3 hrs, larvae L3    68 Caffeine 1.5 mg/ml 4 hrs, larvae L3    59 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    284 Caffeine 25 mg/ml 48 hrs, 4-day adult    172 Paraquat 5 mM 48 hrs, 4-day adult    223 Paraquat 10 mM 48 hrs, 4-day adult    118 Rotenone 2 μg 12 hrs, larvae L3    88 Rotenone 8 μg 12 hrs, larvae L3    40 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult  (107) cold shock, 4-day adult  (82) heat shock, 4-day adult  (131) Cadmium 50 mM 6 hrs, larvae L3  (56) Cadmium 50 mM 12 hrs, larvae L3  (88) Cadmium 50 mM 48 hrs, 4-day adult  (157) Cadmium 100 mM 48 hrs, 4-day adult  (306) Copper 0.5 mM 12 hrs, larvae L3  (74) Copper 15 mM 48 hrs, 4-day adult  (525) Zinc 5 mM 12 hrs, larvae L3  (95) Zinc 4.5 mM 48 hrs, 4-day adult  (259) Ethanol 2.5% 3 hrs, larvae L3  (133) Ethanol 5% 3 hrs, larvae L3  (68) Ethanol 10% 3 hrs, larvae L3  (68) Caffeine 1.5 mg/ml 4 hrs, larvae L3  (59) Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (284) Caffeine 25 mg/ml 48 hrs, 4-day adult  (172) Paraquat 5 mM 48 hrs, 4-day adult  (223) Paraquat 10 mM 48 hrs, 4-day adult  (118) Rotenone 2 μg 12 hrs, larvae L3  (88) Rotenone 8 μg 12 hrs, larvae L3  (40) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult  107 cold shock, 4-day adult    82 heat shock, 4-day adult  131 Cadmium 50 mM 6 hrs, larvae L3    56 Cadmium 50 mM 12 hrs, larvae L3    88 Cadmium 50 mM 48 hrs, 4-day adult  (157) Cadmium 100 mM 48 hrs, 4-day adult  (306) Copper 0.5 mM 12 hrs, larvae L3    74 Copper 15 mM 48 hrs, 4-day adult  (525) Zinc 5 mM 12 hrs, larvae L3    95 Zinc 4.5 mM 48 hrs, 4-day adult  (259) Ethanol 2.5% 3 hrs, larvae L3  133 Ethanol 5% 3 hrs, larvae L3    68 Ethanol 10% 3 hrs, larvae L3    68 Caffeine 1.5 mg/ml 4 hrs, larvae L3    59 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (284) Caffeine 25 mg/ml 48 hrs, 4-day adult  (172) Paraquat 5 mM 48 hrs, 4-day adult  (223) Paraquat 10 mM 48 hrs, 4-day adult  118 Rotenone 2 μg 12 hrs, larvae L3    88 Rotenone 8 μg 12 hrs, larvae L3    40 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    107 cold shock, 4-day adult    82 heat shock, 4-day adult    131 Cadmium 50 mM 6 hrs, larvae L3    56 Cadmium 50 mM 12 hrs, larvae L3    88 Cadmium 50 mM 48 hrs, 4-day adult    157 Cadmium 100 mM 48 hrs, 4-day adult    306 Copper 0.5 mM 12 hrs, larvae L3    74 Copper 15 mM 48 hrs, 4-day adult    525 Zinc 5 mM 12 hrs, larvae L3    95 Zinc 4.5 mM 48 hrs, 4-day adult    259 Ethanol 2.5% 3 hrs, larvae L3    133 Ethanol 5% 3 hrs, larvae L3    68 Ethanol 10% 3 hrs, larvae L3    68 Caffeine 1.5 mg/ml 4 hrs, larvae L3    59 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    284 Caffeine 25 mg/ml 48 hrs, 4-day adult    172 Paraquat 5 mM 48 hrs, 4-day adult    223 Paraquat 10 mM 48 hrs, 4-day adult    118 Rotenone 2 μg 12 hrs, larvae L3    88 Rotenone 8 μg 12 hrs, larvae L3    40 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
External Data & Images
Linkouts	BDGP expression data • PC00325 GM03761
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal sqdix50 sqdix77 lethal (with Df(3R)l26c) sqdj4B4 lethal (with Df(3R)urd) sqdix50 sqdj4B4 lethal | embryonic stage | maternal effect sqdK12 lethal | pupal stage, with Scer\GAL4pnr-MD237 sqdGD8593 lethal | recessive sqdix50 sqdj4B4 sqdj6E3 sqdj8E7 lethal | recessive, with Scer\GAL4[-]: sqdEP3631 partially lethal - majority die (with Df(3R)urd) sqdix77 partially lethal - majority die (with sqdix50) sqdj4B4 partially lethal - majority die (with sqdix77) sqdj4B4 partially lethal - majority die (with sqdj4B4) sqdix50 sqdix77 viable sqdCB02655 Sterility Allele female sterile sqd1 sqd00048 sqdAN240 sqdix43 sqdj4B4 sqdj6E3 female sterile (with sqd1) sqdix50 sqdix77 female sterile (with sqdix50) sqd1 female sterile (with sqdix77) sqd1 female sterile | recessive sqd00048 semi-sterile | recessive sqd65 sqd77 Other Phenotypes Allele visible, with Scer\GAL4GMR.PF sqdGD8593 Phenotype manifest in Allele border follicle cell | germline clone sqdj4B4 centripetally migrating follicle cell | germline clone sqdj4B4 chorion sqd1 chorion (with sqd1) sqdK12 chorion (with sqdK12) sqd1 chorion | dorsal sqdK12 cystocyte | germline clone sqdj4B4 dorsal appendage sqd1 dorsal appendage (with sqd1) sqdK12 dorsal appendage (with sqdK12) sqd1 dorsal appendage | germline clone sqdj4B4 dorsal appendage | maternal effect sqdK12 egg sqdj6E3 egg (with sqd1) sqdK12 egg (with sqdK12) sqd1 egg | germline clone sqdj4B4 egg | maternal effect | ventral sqd1 egg chamber | germline clone sqdj4B4 egg operculum (with sqd1) sqdK12 egg operculum (with sqdK12) sqd1 filzkorper | maternal effect sqdK12 follicle cell | germline clone sqdj4B4 interfollicle cell | germline clone sqdj4B4 interommatidial bristle, with Scer\GAL4GMR.PF sqdGD8593 microtubule organizing center & oocyte | germ-line clone sqdj4B4 nurse cell & nuclear chromosome sqdix77 sqd1 nurse cell | germline clone sqdj4B4 oocyte sqdix77 sqd1 oocyte (with Df(3R)urd) sqdj4B4 sqdix77 oocyte (with sqd1) sqdj4B4 oocyte (with sqdix50) sqdj4B4 oocyte (with sqdix77) sqdj4B4 oocyte (with sqdj4B4) sqdix50 sqdix77 sqd1 oocyte & microtubule | germ-line clone sqdj4B4 oocyte | germline clone sqdj4B4 ovariole | germline clone sqdj4B4 spermatogonium, with Scer\GAL4ptc-559.1 sqdEP746 ventral furrow sqddsRNA.cGa
Classical Alleles ( 31 )
For All Classical Alleles Show
Allele of sqd Class Mutagen Stocks Known lesion sqd5-HA-2313 1 -- sqdc04803 piggyBac transposase 1 -- sqdd01996 1 -- sqde01416 piggyBac transposase 1 -- sqdf01931 piggyBac transposase 1 -- sqdj4B4 P-element activity 1 -- sqdj6E3 P-element activity 1 -- sqdUM-8129-3 1 -- sqd00048 P-element activity 0 -- sqd1 hypomorphic allele - genetic evidence P-element activity 0 Yes sqd65 Js 0 Yes sqd77 Js 0 Yes sqdAN240 P-element activity 0 -- sqdCB02655 P-element activity 0 Yes sqdCPTI000239 piggyBac transposase 0 Yes sqdDG09709 0 -- sqde03468 piggyBac transposase 0 -- sqdEP3568 P-element activity 0 -- sqdEP3631 P-element activity 0 -- sqdEP3732 P-element activity 0 -- sqdEP746 P-element activity 0 -- sqdEP955 P-element activity 0 -- sqdf03387 piggyBac transposase 0 -- sqdix43 Js 0 Yes sqdix50 Js 0 Yes sqdix77 Js 0 Yes sqdj8E7 P-element activity 0 -- sqdK12 ethyl methanesulfonate 0 -- sqdpx3 hypomorphic allele - genetic evidence Js 0 Yes sqdr5 0 Yes sqdunspecified 0 --
Alleles Carried on Transgenic Constructs ( 8 )
For All Alleles Carried on Transgenic Constructs Show
Allele of sqd Class Mutagen Stocks Known lesion sqdGD8593 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sqdGL00473 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sqdJF01248 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sqdJF01479 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes sqdA in vitro construct 0 Yes sqdB in vitro construct 0 Yes sqddsRNA.cGa in vitro construct - RNAi 0 Yes sqdS in vitro construct 0 Yes
Aneuploid Aberrations
Not disrupted in	Df(3R)red3l (BDGP Project Members, 1994-1999, Peng and Mount, 1995, Spradling et al., 1999) Df(3R)ry27 (Peng and Mount, 1995) Df(3R)ry615 (BDGP Project Members, 1994-1999) Df(3R)urd (Francis-Lang, 1999.8.10)
Disrupted in	Df(3R)B52R1 (Peng and Mount, 1995) Df(3R)Exel6169 (Ryder, 2004.4.26) Df(3R)l26c (Francis-Lang, 1999.8.10, Peng and Mount, 1995) Df(3R)urd (Peng and Mount, 1995, Norvell et al., 2005)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD8593} NA P{TRiP.GL00473} NA P{TRiP.JF01248} NA P{TRiP.JF01479} NA characterization construct P{sqdA} NA P{sqdB} NA P{sqdS} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}rinEP920 NA P{EP}sqdEP746 NA P{EP}sqdEP955 NA P{EP}sqdEP3568 NA P{EP}sqdEP3631 NA P{EP}sqdEP3732 NA P{XP}sqdd01996 NA miscellaneous insertions P{?ry11}sqdix43 NA P{PTT-GB}sqdCB02655 NA P{RS3}sqdUM-8129-3 NA P{RS5}sqd5-HA-2313 NA P{ry11}sqd1 NA P{wHy}sqdDG09709 NA PBac{602.P.SVS-1}sqdCPTI000239 NA PBac{PB}sqdc04803 NA PBac{RB}sqde01416 NA PBac{RB}sqde03468 NA PBac{WH}sqdf01931 NA PBac{WH}sqdf03387 NA insertion of enhancer trap P{lacW}sqdj4B4 No P{lacW}sqdj6E3 No P{lacW}sqdj8E7 No P{lacZ}sqdAN240 No P{PZ}sqd00048 No
Gene Ontology: Function, Process & Cellular Component ( 31 unique terms )
Terms Based on Experimental Evidence ( 19 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
dorsal/ventral axis specification, ovarian follicular epithelium inferred from mutant phenotype (Kelley, 1993) dorsal/ventral pattern formation inferred from mutant phenotype (Clouse et al., 2008) germarium-derived egg chamber formation inferred from mutant phenotype (Steinhauer and Kalderon, 2005) negative regulation of RNA splicing inferred from mutant phenotype (Ji and Tulin, 2009) oocyte anterior/posterior axis specification inferred from mutant phenotype (Steinhauer and Kalderon, 2005) oocyte localization involved in germarium-derived egg chamber formation inferred from mutant phenotype (Steinhauer and Kalderon, 2005) oocyte microtubule cytoskeleton organization inferred from mutant phenotype (Steinhauer and Kalderon, 2005) oogenesis inferred from mutant phenotype (Perrimon et al., 1996, Steinhauer and Kalderon, 2005) ovarian follicle cell migration inferred from mutant phenotype (Kelley, 1993) pole plasm mRNA localization inferred from mutant phenotype (Herpers and Rabouille, 2004) pole plasm oskar mRNA localization inferred from expression pattern (Norvell et al., 2005) regulation of alternative mRNA splicing, via spliceosome inferred from mutant phenotype (Park et al., 2004)
Cellular Component
CV term Evidence References
catalytic step 2 spliceosome inferred from direct assay (Herold et al., 2009) chromatin inferred from direct assay (Prasanth et al., 2000) NOT nucleolus inferred from direct assay (Matunis et al., 1992) nucleus inferred from direct assay (Matunis et al., 1992, Prasanth et al., 2000) omega speckle inferred from direct assay (Prasanth et al., 2000) polytene chromosome puff inferred from direct assay (Matunis et al., 1992, Ji and Tulin, 2009) precatalytic spliceosome inferred from direct assay (Herold et al., 2009)
Terms Based on Predictions or Assertions ( 15 terms )
Molecular Function
CV term Evidence References
mRNA 3'-UTR binding traceable author statement (Cooperstock and Lipshitz, 1997, Johnstone and Lasko, 2001) mRNA binding inferred from sequence or structural similarity (Lasko, 2000) non-traceable author statement (Kim, 1993.3.10, Swiss-Prot Project Members, 1995.2.1) nucleic acid binding inferred from electronic annotation with InterPro:IPR000504 (FlyBase Curators et al., 2004-) nucleotide binding inferred from electronic annotation with InterPro:IPR012677 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
dorsal/ventral pattern formation traceable author statement (Cooperstock and Lipshitz, 1997, Farina and Singer, 2002) intracellular mRNA localization non-traceable author statement (Tekotte and Davis, 2002) traceable author statement (Cooperstock and Lipshitz, 1997, Johnstone and Lasko, 2001, Farina and Singer, 2002) mRNA export from nucleus non-traceable author statement (Tekotte and Davis, 2002) mRNA splicing, via spliceosome inferred by curator from GO:0071011|GO:0071013 (Herold et al., 2009) negative regulation of translation traceable author statement (Cooperstock and Lipshitz, 1997) nuclear-transcribed mRNA catabolic process, nonsense-mediated decay traceable author statement (Farina and Singer, 2002) oogenesis traceable author statement (Farina and Singer, 2002) RNA export from nucleus traceable author statement (Cooperstock and Lipshitz, 1997)
Cellular Component
CV term Evidence References
cytoplasm traceable author statement (Johnstone and Lasko, 2001) nucleus inferred by curator from GO:0000381 (Park et al., 2004) traceable author statement (Cooperstock and Lipshitz, 1997, Johnstone and Lasko, 2001) ribonucleoprotein complex inferred from sequence or structural similarity with EMBL:AF026126 (FlyBase, 1992-) non-traceable author statement (Swiss-Prot Project Members, 1995.2.1)
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 sqd allele Gene References sqd1 Hrb27C (Goodrich et al., 2004) otu (Goodrich et al., 2004) sqdK12 Hrb27C (Goodrich et al., 2004)
External Data
Linkouts
Orthologs
OrthoDB Orthologs (160) - 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 EOG6WDDZ4 Dipteran inclusive ortholog search EOG6W6P53 Insect inclusive ortholog search EOG6GTJ94 Arthropod inclusive ortholog search EOG60RXXV Metazoa inclusive ortholog search EOG6G20CW
Orthologs in Drosophila Species (EOG6WDDZ4)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\sqd     Drosophila simulans   Dsim\GD20486     Drosophila sechellia   Dsec\GM25920     Drosophila erecta   Dere\GG17035     Drosophila yakuba   Dyak\GE24428     Drosophila ananassae   Dana\GF17370     Drosophila pseudoobscura pseudoobscura   Dpse\GA14206     Drosophila persimilis   Dper\GL23974     Drosophila willistoni   Dwil\GK13337     Drosophila virilis   Dvir\GJ23113     Drosophila mojavensis   Dmoj\GI10695     Drosophila grimshawi   Dgri\GH19060
Orthologs in non-Drosophila Dipterans (EOG6W6P53)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL005515   Anopheles gambiae Malaria mosquito  Agam\AGAP006668   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ801900
Orthologs in non-Dipteran Insects (EOG6GTJ94)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB43300   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG013911   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH18214   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH13559   Atta cephalotes Leafcutter ant  Acep\ACEP19523   Atta cephalotes Leafcutter ant  Acep\ACEP11741   Camponotus floridanus Florida carpenter ant  Cflo\CFLO16407   Camponotus floridanus Florida carpenter ant  Cflo\CFLO13783   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL16332   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL23212   Linepithema humile Argentine ant  Lhum\LH18367   Linepithema humile Argentine ant  Lhum\LH22943   Pogonomyrmex barbatus Red harvester ant  Pbar\PB26069   Pogonomyrmex barbatus Red harvester ant  Pbar\PB18937   Solenopsis invicta Red fire ant  Sinv\SINV13615   Solenopsis invicta Red fire ant  Sinv\SINV14677   Acyrthosiphon pisum Pea aphid  Apim\ACYPI003403   Acyrthosiphon pisum Pea aphid  Apim\ACYPI008564   Bombyx mori Silkmoth  Bmor\BGIBMGA013464   Pediculus humanus Human body louse  Phum\PHUM596900   Tribolium castaneum Red flour beetle  Tcas\TC000928
Orthologs in non-Insect Arthropods (EOG60RXXV)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\dct-15   Ixodes scapularis Deer tick  Isca\ISCW007146
Orthologs in non-Arthropod Metazoa (EOG6G20CW)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\sqd-1 Y Caenorhabditis elegans Nematode  Cele\hrp-1 Y Caenorhabditis elegans Nematode  Cele\H28G03.1 Y Caenorhabditis elegans Nematode  Cele\msi-1 Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_022512gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_008172gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_015676gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_020274gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_026906gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_002003gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_007318gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_017609gn Y Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_024306gn Y Danio rerio Zebrafish  Drer\hnrnpd Y Danio rerio Zebrafish  Drer\hnrnpa1 Y Danio rerio Zebrafish  Drer\zgc:66127 Y Danio rerio Zebrafish  Drer\dazap1 Y Danio rerio Zebrafish  Drer\msi2a Y Danio rerio Zebrafish  Drer\hnrnpab Y Danio rerio Zebrafish  Drer\msi2b Y Danio rerio Zebrafish  Drer\hnrnpa0l Y Danio rerio Zebrafish  Drer\hnrpdl Y Danio rerio Zebrafish  Drer\zgc:77366 Y Danio rerio Zebrafish  Drer\msi1 Y Danio rerio Zebrafish  Drer\zgc:77052 Y Danio rerio Zebrafish  Drer\hnrnpa3 Y Danio rerio Zebrafish  Drer\hnrnpa0 Y Xenopus tropicalis Western clawed frog  Xtro\dazap1 Y Xenopus tropicalis Western clawed frog  Xtro\msi1 Y Xenopus tropicalis Western clawed frog  Xtro\hnrnpd Y Xenopus tropicalis Western clawed frog  Xtro\hnrnpa2b1 Y Xenopus tropicalis Western clawed frog  Xtro\hnrpdl Y Xenopus tropicalis Western clawed frog  Xtro\hnrnpa0 Y Xenopus tropicalis Western clawed frog  Xtro\hnrnpa1 Y Xenopus tropicalis Western clawed frog  Xtro\hnrnpa3 Y Xenopus tropicalis Western clawed frog  Xtro\hnrnpab Y Gallus gallus Domestic chicken  Ggal\DAZAP1 Y Gallus gallus Domestic chicken  Ggal\HNRNPA0 Y Gallus gallus Domestic chicken  Ggal\HNRNPA2B1 Y Gallus gallus Domestic chicken  Ggal\HNRNPAB Y Gallus gallus Domestic chicken  Ggal\HNRNPA3 Y Gallus gallus Domestic chicken  Ggal\HNRPDL Y Gallus gallus Domestic chicken  Ggal\MSI2 Y Gallus gallus Domestic chicken  Ggal\HNRNPD Y Gallus gallus Domestic chicken  Ggal\MSI2 Y Mus musculus House mouse  Mmus\Gm6793 Y Mus musculus House mouse  Mmus\Dazap1 Y Mus musculus House mouse  Mmus\Hnrnpa3 Y Mus musculus House mouse  Mmus\Hnrpdl Y Mus musculus House mouse  Mmus\Hnrnpa1 Y Mus musculus House mouse  Mmus\Gm7551 Y Mus musculus House mouse  Mmus\Gm8991 Y Mus musculus House mouse  Mmus\Msi1 Y Mus musculus House mouse  Mmus\ENSMUSG00000004980 Y Mus musculus House mouse  Mmus\Hnrnpab Y Mus musculus House mouse  Mmus\Rbm31y Y Mus musculus House mouse  Mmus\Hnrnpa0 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000031608 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000021254 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000013650 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000030250 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000032168 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000023438 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000031972 Y Rattus norvegicus Norway rat  Rnor\Msi1 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000031316 Y Rattus norvegicus Norway rat  Rnor\Hnrpdl Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000021280 Y Rattus norvegicus Norway rat  Rnor\RGD1564416 Y Rattus norvegicus Norway rat  Rnor\Msi2 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000025891 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000024652 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000042093 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000021929 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000032584 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000017651 Y Rattus norvegicus Norway rat  Rnor\Dazap1 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000029641 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000039436 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000005951 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000007252 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000027915 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000021986 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000024895 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000042377 Y Rattus norvegicus Norway rat  Rnor\Hnrnpa2b1 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000011100 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000005671 Y Rattus norvegicus Norway rat  Rnor\Hnrnpa1 Y Rattus norvegicus Norway rat  Rnor\Hnrpd Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000017364 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000029434 Y Rattus norvegicus Norway rat  Rnor\Hnrnpab Y Rattus norvegicus Norway rat  Rnor\LOC100360986 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000039876 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000029531 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000033211 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000042924 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000043173 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000039983 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000038905 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000033182 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000027605 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000022655 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000025482 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000029898 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000030901 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000032616 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000027006 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000038392 Y Rattus norvegicus Norway rat  Rnor\ENSRNOG00000022285 Y Homo sapiens Human  Hsap\HNRNPA0 Y Homo sapiens Human  Hsap\DAZAP1 Y Homo sapiens Human  Hsap\HNRNPA2B1 Y Homo sapiens Human  Hsap\ENSG00000197451 Y Homo sapiens Human  Hsap\HNRNPD Y Homo sapiens Human  Hsap\MSI2 Y Homo sapiens Human  Hsap\HNRNPA1L2 Y Homo sapiens Human  Hsap\ENSG00000135486 Y Homo sapiens Human  Hsap\HNRNPA3 Y Homo sapiens Human  Hsap\HNRPDL Y Homo sapiens Human  Hsap\MSI1 Y
Human Orthologs (11)
Gene OMIM HGNC Hsap\HNRNPA0     Hsap\DAZAP1     Hsap\HNRNPA2B1     Hsap\ENSG00000197451     Hsap\HNRNPD     Hsap\MSI2     Hsap\HNRNPA1L2     Hsap\ENSG00000135486     Hsap\HNRNPA3     Hsap\HNRPDL     Hsap\MSI1
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 12 )
Bloomington	31302 y1 v1; P{TRiP.JF01248}attP2 31686 y1 v1; P{TRiP.JF01479}attP2 35627 y1 sc* v1; P{TRiP.GL00473}attP2 12134 y1 w*; P{lacW}j4B4b P{lacW}sqdj4B4/TM3, Sb1 12133 y1 w*; P{lacW}sqdj6E3, l(3)j6E3j6E3/TM3, Sb1
Harvard	- P{XP}sqdd01996 - PBac{PB}sqdc04803 - PBac{RB}sqde01416 - PBac{WH}sqdf01931
Kyoto	124361 w1118; P{RS3}sqdUM-8129-3 125596 w1118; P{RS5}sqd5-HA-2313
VDRC	v32395 w1118; P{GD8593}v32395
Genomic Clones ( 1 )
	BACR03J04 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 825 )
	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	GH03391 GM03761 HL05737 LD09564 LD09691 LD29474
Other clones	RE53638 RE67311
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT01432 AT20714 AT23705 GH16552 GH20131 GH23881 GH27510 GM02663 GM03520 GM03844 GM04652 GM05804 GM06004 GM30808 LD01238 LD01521 LD02660 LD02842 LD04414 LD05435 LD08651 LD09541 LD09714 LD09758 LD10346 LD10579 LD10617 LD11088 LD11172 LD15210 LD16631 LD21094 LD21807 LD26616 LD28925 LD31730 LD39753 LD40474 LD42268 LD44768 LP09016 RE02235 RE04416 RE04656 RE05147 RE06984 RE13054 RE13416 RE15520 RE16534 RE16853 RE18389 RE19710 RE21421 RE21671 RE23526 RE25284 RE25740 RE34327 RE34428 RE35433 RE35526 RE35607 RE36480 RE36748 RE37588 RE39083 RE39241 RE42163 RE42164 RE44929 RE45249 RE47504 RE48684 RE49244 RE51144 RE51465 RE51484 RE52171 RE53803 RE53965 RE55504 RE55974 RE57329 RE58370 RE60524 RE60817 RE63662 RE67875 RE69445 RE70054 RE70165 RE71632 RE73289 RE73574 RE74089 RH05323 RH07018 RH07528 RH07945 RH09581 RH11314 RH18036 RH24441 RH30309 RH38178 RH38982 RH40137 RH41854 RH42427 RH42556 RH45226 RH47248 RH52115 RH52849 RH64791 RH65804 RH66821 RH74306 SD01090 SD07638 SD09273 SD09657 SD11122 SD12649 SD16344 SD17937 SD18629 SD18840 SD22240 SD22260 SD23074 SD23106 SD24554 SD24765
Other clones	108 441 1050 1725 1954 7520 9296 11143 11152 11154 12525 12760 12959 14498 14624 14628 14784 15540 16179 17064 17895 18933 19241 19989 30251 31270 32450 32816 33262 33822 34557 35568 36580 36824 37410 37468 38435 39193 40096 41412 41539 41601 42008 42281 42885 44436 44790 45165 46234 46821 49919 51109 53791 53999 54959 55518 59373 60398 60432 61376 62369 62593 63201 64270 64946 65110 66592 67015 67075 70493 70992 70997 71666 72241 72310 72602 73532 74516 74964 76710 76809 77143 77479 77764 80361 80600 80718 81031 81162 82922 82989 84376 97071 97265 97920 98385 98957 99065 100189 101008 102920 104220 104388 105246 105383 106172 107201 107521 107847 108157 108467 117609 118607 118878 119357 119465 120004 120398 120441 121997 125295 125648 144430 145107 145428 145610 145678 148649 149010 156501 156716 156790 159008 159126 160248 160507 160943 161839 163035 163478 164494 164524 165705 165848 172966 173303 173476 174750 175585 176626 177248 184421 190366 191229 191556 191906 192578 193419 194029 194275 194399 211044.2 214223.41 214223.42 214245.53 214247.56 214277.48 214307.39 214307.40 214385.50 214405.60 214475.44 214475.45 214475.46 214479.50 214509.41 214509.42 214533.47 214533.49 214539.52 214565.47 214573.2 214573.35 214573.36 214575.27 214577.31 272755 272872 273144 273284 274494 280613 281529 281680 282366 522342 523646 524403 542469 557135 558046 568960 569075 569712 571141 571223 bs22g07 bs35g09 CK01.1A.C3 CK01.2A.A8 CK01.5B.E12 CK01.6A.G8 CK01.13C.F12 CK01.14C.D3 CK01.17D.F1 CK01.25A.H6 CK01.29D.F5 CK01.30D.F10 CK01.32B.H1 CK01.40D.G8 CK01.51A.G11 CK01.51B.D2 CK01.54A.D5 CK01.55B.H2 CK01.58D.F4 CK01.59D.C5 CK01.60B.F5 CK01.60B.H5 CK01.60C.H1 CK01.62D.H5 CK01.63C.C4 CK01.72A.D10 CK01.73B.E10 CK01.76A.B10 CK01.76A.E9 CK01.79C.F10 CK01.84A.E11 CK01.84B.E5 CK01.84C.F2 CK01.86B.H12 CK01.87D.E3 CK01.88C.D11 CK01.89A.H2 CK01.89C.B4 CK01.90C.E3 CK01.90C.F1 CK01.91D.G9 CK01.93B.C2 CK01.94A.G9 CK01.95A.G4 CK01.95B.D1 CK01.97C.H1 CK01.98A.A12 CK01.98D.F7 CK01.100A.E12 CK01.103B.B8 CK01.105B.F10 CK01.107C.G10 CK01.109D.G2 CK01.110A.A2 CK01.111A.F7 CK01.111C.E8 CK01.112B.G7 CK01.112C.F4 CK01.113B.G4 CK01.113B.H12 CK01.119D.H10 CK01.122C.B6 CK01.123C.E5 CK01.124B.E4 CK01.124D.H8 CK01.128C.H2 CK01.144C.G10 CK01.167A.H9 CK01.168D.D10 Dmel_dig_001227_0627_3759 Dmel_dig_005392_0593_2517 Dmel_dig_009325_0634_1848 Dmel_dig_009394_0593_2027 Dmel_dig_011880_0698_2559 Dmel_dig_012339_0637_2795 Dmel_dig_014967_0710_1858 Dmel_dig_015362_0596_1057 Dmel_dig_015638_0662_1446 Dmel_dig_017579_0719_1414 Dmel_dig_018747_0598_1544 Dmel_dig_019005_0630_0917 Dmel_dig_019543_0664_2801 Dmel_dig_019895_0691_1648 Dmel_neb_011887_0580_1188 Dmel_neb_012806_0600_1898 Dmel_neb_013222_0878_0996 Dmel_neb_013864_0109_0335 EC15183 EC26225 EC30776 EK001754 EK002644 EK002748 EK026218 EK035043 EK041003 EK042309 EK044015 EK044409 EK044961 EK047754 EK049556 EK050631 EK051342 EK054314 EK057245 EK057838 EK058402 EK059517 EK061853 EK063226 EK063308 EK063423 EK063431 EK063629 EK065305 EK066820 EK067040 EK068819 EK069318 EK069616 EK070061 EK070418 EK070421 EK071104 EK071905 EK073325 EK073944 EK074113 EK075529 EK084739 EK091263 EK091541 EK094019 EK094139 EK094550 EK094864 EK095908 EK096206 EK099157 EK099333 EK099661 EK100406 EK102031 EK103745 EK107061 EK107655 EK108337 EK110840 EK110844 EK111508 EK113505 EK114153 EK117038 EK117044 EK119059 EK119514 EK121221 EK121660 EK125439 EK127054 EK128636 EK130161 EK130301 EK130603 EK133759 EK138101 EK138740 EK138804 EK139864 EK140201 EK140917 EK142806 EK142952 EK143645 EK144810 EK146249 EK146646 EK147059 EK147427 EK147733 EK149256 EK151554 EK153852 EK154425 EK154723 EK155036 EK157334 EK158630 EK159626 EK160843 EK161934 EK162901 EK163441 EK165325 EK166519 EK166662 EK171361 EK172715 EK173449 EK173538 EK175064 EK175503 EK175944 EK178212 EK182326 EK182759 EK184034 EK186035 EK186512 EK186548 EK188201 EK188229 EK188305 EK188563 EK189706 EK189734 EK191003 EK191526 EK193308 EK194364 EK195110 EK195148 EK195607 EK198116 EK199160 EK199435 EK200756 EK201045 EK202309 EK202639 EK204440 EK204906 EK205060 EK206003 EK206448 EK210956 EK213528 EK213759 EK214803 EK216616 EK219659 EK219902 EK220905 EK221002 EK221755 EK221761 EK222938 EK223726 EK229359 EK230161 EK231246 EK233033 EK234064 EK234962 EK235621 EK235663 EK237203 EK237847 EK238630 EK238911 EK239864 EK240359 EK240546 EK242121 EK242658 EK244010 EK244234 EK245337 EK248626 EK250861 EK251303 EK253964 EK255132 EK259156 EK259612 EK259926 EK262046 EK262320 EK266084 EK267036 EK270449 EK272101 EK273004 EK273562 EK277559 EK280327 EK281307 EK284302 EK289454 EK290441 EK294021 EK294536 EK294754 EK295340 EK297226 EK297424 EK299462 EK300007 EK300052 EK300654 EK305428 EK306961 EK307847 EN01844 EN04028 EN10658 EN12123 EN14245 EN14510 EN15438 EN16151 EN16359 EP00630 EP01726 EP02408 EP03113 EP06562 EP06852 EP06961 EP07836 EP07862 EP08152 EP08161 EP08234 EP08817 EP09151 EP09220 EP09554 EP10635 EP11942 EP12655 EP18041 EP18612 FGA009A12 FGC009D09 FGM001C10 FGM003B11 FGM208G11 FGM237A05 FGM307A11 FGM312F02 FGM316B11 FGM322A04 GH08114 GH13025 GH14312 GM08282 GM30589 IP13109 LD02526 LD02532 LD06061 LD06290 LD08512 LD09364 LD12109 LD13420 LD14259 LD14335 LD14929 LD16014 LD16051 LD18376 LD22744 LD22776 LD26431 LD28892 LD29391 LD31978 LD38521 LD39522 LD40074 LD40472 LD42065 LD42711 LD46137 LD46189 LD46504 LD46819 LP02493 LP06501 Parral_28_B08 RE02032 RE03658 RE04441 RE05043 RE06521 RE08337 RE08862 RE09009 RE10894 RE11218 RE14564 RE14911 RE16394 RE16988 RE17144 RE18558 RE23412 RE23446 RE27405 RE29196 RE30063 RE30931 RE31018 RE31073 RE32711 RE32921 RE33850 RE35934 RE36343 RE36549 RE37304 RE37691 RE37953 RE38287 RE39167 RE39244 RE40122 RE40884 RE43408 RE43731 RE45896 RE46128 RE46810 RE47179 RE47238 RE47628 RE47640 RE48664 RE48665 RE51464 RE52050 RE53802 RE58144 RE58989 RE59363 RE63361 RE64440 RE64603 RE64671 RE66860 RE66934 RE70289 RE70907 RE71482 RE73920 RE74266 RH05772 RH08047 RH10207 RH10671 RH11192 RH12033 RH14357 RH14466 RH18118 RH20689 RH27292 RH34439 RH38381 RH38710 RH40096 RH40730 RH41366 RH42121 RH46885 RH54073 RH54312 RH58681 RH60152 RH62343 RH71623 RH71677 RH74335
RNAi & Array Information
Linkouts	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 41666
Antibody Information
	monoclonal (Matunis et al., 1992) monoclonal antibody (Goodrich et al., 2004) polyclonal (Blanchette et al., 2009)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: sqd CG17791 (Gabrielian, 1999.11)
Source for database merge of	Source for merge of: CG16901 CG17791 (FlyBase Genome Annotators, 2002-2003) Source for merge of: CR33328 BcDNA:GM03761 (Rana, 2004.7.2) Source for merge of: sqd CR33328 (FlyBase Genome Annotators, 2011) Source for merge of: sqd l(3)j4B4 (FlyBase, 1996-) Source for merge of: sqd Rbp3 (Misra, 2000.7.28)
Additional comments	Annotation CG16901 merged with annotation CR33328 in release 5.40 of the genome annotation; CR33328 corresponds to 3' UTR of CG16901. (FlyBase Genome Annotators, 2011) Annotations CG16901 and CG17791 merged as sqd in release 3 of the genome annotation. (FlyBase Genome Annotators, 2002-2003)
Other Comments
	Nonsense-mediated mRNA decay (NMD) down-regulates a distinct splice isoform(s) of this gene. (Hansen et al., 2009) Identified as a potential component of the hh signalling pathway in a genome-wide RNAi screen. dsRNA made from templates generated with primers directed affects the extent of expression of a hh signaling reporter construct in Clone 8 cells. (Nybakken et al., 2005) New annotation (CR33328) in release 3.2 of the genome annotation. (FlyBase Genome Annotators, 2004) ftz transcript localization in blastoderm embryos involves sqd, which selectively binds to the ftz 3' UTR. (Lall et al., 1999) Sxl does not form an immunoprecipitable complex with sqd. (Deshpande et al., 1996) The autosomal "FLP-DFS" technique (using the P{ovoD1-18} P{FRT(whs)} P{hsFLP} chromosomes) has been used to identify the specific maternal effect phenotype for the zygotic lethal mutation. sqd is required for germ cell viability or early oogenesis. (Perrimon et al., 1996) sqd expression patterns in wild type and mutant ovaries demonstrates an essential role of sqd gene product in the germ line during oogenesis. (Matunis et al., 1994) Phenotypic and molecular characterisation of sqd demonstrates that the RNA-binding gene product plays a central role in establishing egg polarity. (Kelley, 1993) A sequence comparison and numerical analysis of the RRM-containing (RNA recognition motif) proteins suggests that functionally related RRM-containing proteins have significant sequence similarities in their RRMs. (Kim and Baker, 1993) The distribution of the hnRNP protein sqd on nascent transcripts from polytene chromosomes has been studied. (Matunis et al., 1993) A sqd cDNA clone has been isolated and sequenced. (Matunis et al., 1992)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_143952 NM_169528 NM_169529 NM_206481 NM_001260159 RefSeq (Proteins) • NP_652209 NP_731825 NP_731826 NP_996203 NP_001247088 DDBJ / EMBL / GenBank • AA264867 AA390595 AA441121 AA698813 AA949460 AA950361 AAB24624 AAB26988 AAB26989 AAF54963 AAF54964 AAL39531 AAL47998 AAM49870 AAN13570 AAN71139 AAO25040 AAS65146 AFH06406 AI063527 AI135335 AI239153 AI946265 AI947163 AQ025143 AQ026331 AQ034130 AQ073021 AQ073075 AQ073154 AQ254622 AQ254681 AW941937 AW942080 AW942084 AY069386 AY070527 AY118501 BG638558 BT001384 BT003283 CAA44503 CAA44504 CZ469525 CZ479227 CZ481242 CZ481243 CZ484430 CZ485944 S51693 S61875 S62100 X62637 X62638 Entrez Gene - A searchable database of RefSeq genes. • 41666 3771751 UniProtKB/Swiss-Prot • Q08473
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • RNA recognition motif domain (IPR000504) Nucleotide-binding, alpha-beta plait (IPR012677) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • GM03761 PC00325
Linkouts
	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 41666
Synonyms & Secondary IDs ( 26 )
Reported As
Symbol Synonym	BcDNA:GM03761   CG16901 (Oliver, 2001.8.16, Nybakken et al., 2005, Quinones-Coello, 2007, Hansen et al., 2009, Herold et al., 2009, McIntyre et al., 2006, Ni et al., 2008, Ellis and Carney, 2010, Ni et al., 2011.7.19, Cammarato et al., 2011, Puri et al., 2008) CG17791 (Labourier et al., 2002, ) CR33328   fs(3)00048   hnRNP 1 (Kiebler and DesGroseillers, 2000) Hrb87 (Kim and Baker, 1993) Hrb87Fb   hrp40 (Hartmann et al., 2011, Lakhotia et al., 1999, Reim et al., 1999, Deshpande et al., 1996, Samuels et al., 1994, Matunis et al., 1994, Weeks et al., 1993, Matunis et al., 1993, Matunis et al., 1992, Matunis et al., 1992, Blanchette et al., 2009, Olson et al., 2007) Hrp40 (Rajendra et al., 2001, Prasanth et al., 2000, Hovemann et al., 2000, Kuan et al., 2009) HRP40 (Nakamura et al., 1994) l(3)EP3631 (Francis-Lang, 1999.8.10, ) l(3)j4B4 (Spradling et al., 1999, Perrimon et al., 1996, BDGP Project Members, 1994-1999, ) l(3)j6E3   l(3)j8E7   Rbp3   RRM3 (Kim, 1993.3.10, ) rrm3 (Kim and Baker, 1993) Sqd (McDermott et al., 2012, Onorati et al., 2011, Rasmussen and Kellis, 2007, Minakhina and Steward, 2005, Meigh et al., 2007, Norvell et al., 2008, Ji and Tulin, 2009, Puri et al., 2008) sqd (Sofola et al., 2007, Baxley et al., 2011, Mihailovich et al., 2012, FlyBase Genome Annotators, 2011, Arancio et al., 2010, Klusza and Deng, 2010, Norvell et al., 2005, Buszczak et al., 2007, Nybakken et al., 2005, Quinones-Coello, 2007, Jaramillo et al., 2008, Akdemir et al., 2007, Geng and MacDonald, 2007, Geng and Macdonald, 2006, Delanoue et al., 2007, Clouse et al., 2008, Jaramillo et al., 2008, Telonis-Scott et al., 2009, Ahlander and Bosco, 2009, Dworkin et al., 2009, Hansen et al., 2009, Kalifa et al., 2009, Herold et al., 2009, Gim et al., 2001, McIntyre et al., 2006, Ellis and Carney, 2010, Serbus et al., 2011) SQD (Sofola et al., 2007) Squid (Izaurralde, 1999) squid (Cáceres and Nilson, 2009)
Name Synonym	heterogeneous-nuclear-ribonucleoprotein-87Fb   lethal (3) j4B4   RNA-binding protein 3   Squid (Manh et al., 2005, Meigh et al., 2007, Vanzo et al., 2007, Nurminsky, 2007, Van De Bor et al., 2005, Norvell et al., 2008, Geng and Macdonald, 2006, Boylan et al., 2008, Clouse et al., 2008, Ahlander and Bosco, 2009, Nie et al., 2009, Ji and Tulin, 2009, Kalifa et al., 2009, Gim et al., 2001, Serbus et al., 2011, Majumdar et al., 2012) squid (Hartmann et al., 2011, Klusza and Deng, 2010, Chen and Schupbach, 2006, Kalifa et al., 2009, Cammarato et al., 2011)
Secondary FlyBase IDs
	FBgn0003498 FBgn0010257 FBgn0010299 FBgn0011363 FBgn0011398 FBgn0011413 FBgn0027643 FBgn0040556 FBgn0047283 FBgn0053328 FBgn0086897
References ( 180 )
Generate a list of	All references relating to this gene ( 180 )
List References by type	Research paper  ( 86 ) Supplementary material  ( 4 ) Review  ( 27 ) Personal communication to FlyBase  ( 17 ) Abstract  ( 33 ) FlyBase analysis  ( 6 ) DNA/RNA sequence record  ( 1 ) Conference report  ( 1 ) Curated genome annotation  ( 3 ) Protein sequence record  ( 1 ) Website  ( 1 )
Recent research papers ( 10 )
	Dwivedi et al., 2012, PLoS ONE 7(5): e37113 In Vivo Effects Of Traditional Ayurvedic Formulations in Drosophila melanogaster Model Relate with Therapeutic Applications. [FBrf0218341] Majumdar et al., 2012, Cell 148(3): 515--529 Critical Role of Amyloid-like Oligomers of Drosophila Orb2 in the Persistence of Memory. [FBrf0217407] McDermott et al., 2012, Biol. Open 1(5): 488--497 Drosophila Syncrip binds the gurken mRNA localisation signal and regulates localised transcripts during axis specification. [FBrf0218722] Mihailovich et al., 2012, RNA 18(1): 53--64 Widespread generation of alternative UTRs contributes to sex-specific RNA binding by UNR. [FBrf0216923] Weil et al., 2012, Nat. Cell Biol. 14(12): 1305--1315 Drosophila patterning is established by differential association of mRNAs with P bodies. [FBrf0220085] Baxley et al., 2011, Dev. Biol. 356(2): 398--410 The role of the Suppressor of Hairy-wing insulator protein in Drosophila oogenesis. [FBrf0214454] Hartmann et al., 2011, RNA 17(3): 453--468 Distinct regulatory programs establish widespread sex-specific alternative splicing in Drosophila melanogaster. [FBrf0212988] Onorati et al., 2011, PLoS Genet. 7(5): e1002096 The ISWI Chromatin Remodeler Organizes the hsrω ncRNA–Containing Omega Speckle Nuclear Compartments. [FBrf0213856] Serbus et al., 2011, J. Cell Sci. 124(24): 4299--4308 A feedback loop between Wolbachia and the Drosophila gurken mRNP complex influences Wolbachia titer. [FBrf0217227] Shimada et al., 2011, Dev. Biol. 355(2): 250--262 Reversible response of protein localization and microtubule organization to nutrient stress during Drosophila early oogenesis. [FBrf0213933] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...