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Gene Dmel\bin3

General Information
Symbol	Dmel\bin3	Species	D. melanogaster
Name	bicoid-interacting protein 3	Annotation symbol	CG8276
Feature type	protein_coding_gene	FlyBase ID	FBgn0263144
Gene Model Status	Current	Stock availability	34 publicly available
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	42A13-42A13	Sequence location	2R:2,102,073..2,128,107 [+]
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 bicoid-interacting protein 3 is referred to in FlyBase by the symbol Dmel\bin3 (CG8276, FBgn0263144). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: RNA polymerase II transcription factor binding; snRNA binding. There is experimental evidence that it is involved in the biological process: olfactory behavior; negative regulation of translation. 52 alleles are reported. The phenotypes of these alleles are annotated with: cephalopharyngeal skeleton; mesothoracic tergum; tormogen cell. It has 3 annotated transcripts and 3 annotated polypeptides. Protein features are: Bicoid-interacting 3; Bin3-type S-adenosyl-L-methionine binding domain; Methyltransferase domain. Gene sequence location is 2R:2102073..2128107.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03	Alleles bin3[MI08045]
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 42A13-42A13   Limits computationally determined from genome sequence between P{lacW}l(2)k09848k09848&P{EP}EP407 and P{lacW}geminink14019&P{PZ}Adf101349; Left limit from in situ hybridisation (FBrf0157097) Right limit from in situ hybridisation (FBrf0157097)
Experimentally Determined Cytological Location
Cytogenetic map Notes References 42A12-42A13     (Oh et al., 2003) 42A16-42B2     (Zhu, 1998.10.6) 42B-42B   (determined by in situ hybridisation)   (Zhu and Hanes, 2000)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\bin3 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Low-frequency RNA-Seq exon junction(s) not annotated. Gene model reviewed during 5.47
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) bin3-RA FBtr0085993  NM_165468   5606   1367 bin3-RB FBtr0085992  NM_078902   4760   1367 bin3-RC FBtr0336519  NM_001273795   4718   1367
Additional Transcript Data & Comments
Reported size (kB)	4.588 (compiled cDNA) (Zhu and Hanes, 2000)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein bin3-PA   FBpp0085337   146.2   1367   9.20     NP_724468   AAF57267 bin3-PB   FBpp0085336   146.2   1367   9.20     NP_523626   AAM68350 bin3-PC   FBpp0307591   146.2   1367   9.20     NP_001260724   AGB93258
Additional Polypeptide Data & Comments
Reported size (kDa)	1368 (aa); 146 (kD predicted) (Zhu and Hanes, 2000)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Methyltransferase domain (IPR025714) Bin3-type S-adenosyl-L-methionine binding domain (IPR024160) Bicoid-interacting 3 (IPR010675)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA567814   AA696878   AA802570   AE013599 AAF57267   AE013599 AAM68350   AB082349   AF097636 AAF63187   AE013599 AGB93258   AI543228   AW944612   AY052142 AAK93566   BF493046   BF493047   BG633666   BH740676   BH840516   BI165070   BI168339   BI171011   BI229750   BI237286   BI243356   BI356241   BI357804   BI357907   BI364488   BI366723   BI366726   BI375410   BI375459   BI483512   BI484145   BI564880   BI570432   BI612072   BI616862   BI624451   BQ103208   BQ103210   BT004890 AAO47868   CL610243   CL844439   CO187687   CO264332   CO264647   CO271963   CO281780   CO284950   CO285528   CO285538   CO289231   CO291699   CO296018   CO297888   CO318220   CO326049   CO326378   CO331488   CO345195   CO345572   CZ468405   CZ468529   CZ469914   CZ469915   CZ472066   CZ472084   CZ472103   CZ473536   CZ475922   CZ477337   CZ479939   CZ480058   CZ480830   CZ481976   CZ482635   CZ484957   CZ484958   CZ488210   CZ488243   CZ488244   CZ489315   CZ489316   EC058746   EC061880   EC062644   EC072446   EC194830   EC197669   EC217980   EC221267   EC222253   EC222830   EC224734   EC225115   EC227896   EC232926   EC234565   EC238768   EC249714   EC250974   EC254124   EC260773   EV575921   EV578804   EV585998   EV596995   EV600153
UniProtKB/Swiss-Prot	Q7K480
UniProtKB/TrEMBL	E2QC61
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   anterior endoderm anlage   (Fisher et al., 2012) foregut anlage   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 9 -- 10   anterior endoderm   (Fisher et al., 2012) foregut primordium   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 11 -- 12   amnioserosa   (Fisher et al., 2012) central brain primordium   (Fisher et al., 2012) foregut primordium   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) hindgut proper primordium   (Fisher et al., 2012) Malpighian tubule primordium   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) posterior midgut primordium   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic brain   (Fisher et al., 2012) organism | faint & ubiquitous   (Fisher et al., 2012) organism | ubiquitous   (Fisher et al., 2012) ventral nerve cord   (Fisher et al., 2012) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage | early   organism | ubiquitous   (Zhu and Hanes, 2000) embryonic stage 1 -- 9     (Zhu and Hanes, 2000) Comment:reference states 0-4 hr AEL
Additional Descriptive Data
	Northern blot analysis indicates that bin3 transcripts are most abundant in 0-2hr embryos, are at lower levels in 2-4hr embryos and drop dramatically in 4-24hr embryos. In situ hybridization shows that bin3 transcripts are distributed throughout the early embryo and in unfertilized eggs. (Zhu and Hanes, 2000)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (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    21 central nervous system, larvae L3    40 central nervous system, pupae P8    27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female    108 ovary, mated 4-day female    88 testis, mated 4-day male    5 accessory gland, mated 4-day male    7 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    21 central nervous system, larvae L3  (40) central nervous system, pupae P8  (27) head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female  (108) ovary, mated 4-day female  (88) testis, mated 4-day male    5 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    21 central nervous system, larvae L3    40 central nervous system, pupae P8    27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female  (108) ovary, mated 4-day female    88 testis, mated 4-day male    5 accessory gland, mated 4-day male    7 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    21 central nervous system, larvae L3    40 central nervous system, pupae P8    27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female    108 ovary, mated 4-day female    88 testis, mated 4-day male    5 accessory gland, mated 4-day male    7 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    21 central nervous system, larvae L3    40 central nervous system, pupae P8    27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female    108 ovary, mated 4-day female    88 testis, mated 4-day male    5 accessory gland, mated 4-day male    7 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    21 central nervous system, larvae L3  (40) central nervous system, pupae P8  27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female  (108) ovary, mated 4-day female  (88) testis, mated 4-day male    5 accessory gland, mated 4-day male    7 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    21 central nervous system, larvae L3    40 central nervous system, pupae P8    27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female  108 ovary, mated 4-day female    88 testis, mated 4-day male    5 accessory gland, mated 4-day male    7 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    21 central nervous system, larvae L3    40 central nervous system, pupae P8    27 head, virgin 1-day female    13 head, virgin 4-day female    12 head, virgin 20-day female    11 head, mated 1-day female    13 head, mated 4-day female    11 head, mated 20-day female    11 head, mated 1-day male    18 head, mated 4-day male    19 head, mated 20-day male    19 salivary gland, larvae L3 wandering    2 salivary gland, white prepupae    21 digestive system, larvae L3 wandering    8 digestive system, 1-day adult    7 digestive system, 4-day adult    9 digestive system, 20-day adult    10 fat body, larvae L3 wandering    7 fat body, white prepupae    14 fat body, pupae P8    15 carcass, larvae L3 wandering    14 carcass, 1-day adult    10 carcass, 4-day adult    14 carcass, 20-day adult    11 ovary, virgin 4-day female    108 ovary, mated 4-day female    88 testis, mated 4-day male    5 accessory gland, mated 4-day male    7 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    87 embryo 02-04hr    42 embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day    30 adult female 05day    54 adult female 30day    54 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (87) embryo 02-04hr  (42) embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day  (30) adult female 05day  (54) adult female 30day  (54) Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    87 embryo 02-04hr    42 embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day    30 adult female 05day    54 adult female 30day    54 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    87 embryo 02-04hr    42 embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day    30 adult female 05day    54 adult female 30day    54 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    87 embryo 02-04hr    42 embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day    30 adult female 05day    54 adult female 30day    54 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (87) embryo 02-04hr  (42) embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day  30 adult female 05day  (54) adult female 30day  (54) Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    87 embryo 02-04hr    42 embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day    30 adult female 05day    54 adult female 30day    54 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    87 embryo 02-04hr    42 embryo 04-06hr    17 embryo 06-08hr    19 embryo 08-10hr    20 embryo 10-12hr    18 embryo 12-14hr    16 embryo 14-16hr    17 embryo 16-18hr    16 embryo 18-20hr    14 embryo 20-22hr    14 embryo 22-24hr    13 larva L1    16 larva L2    10 larva L3 12hr old    10 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    11 larva L3 puffstage 7-9    12 white prepupae new    14 white prepupae 12hr    16 white prepupae 24hr    21 pupae 2d postWPP    17 pupae 3d postWPP    11 pupae 4d postWPP    8 adult male 01day    9 adult male 05day    9 adult male 30day    9 adult female 01day    30 adult female 05day    54 adult female 30day    54 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+    46 Schneider line 2 Sg4    48 embryonic 1182-4H    29 embryonic GM2    29 embryonic Kc167    18 embryonic S1    21 embryonic S3    59 leg disc CME L1    51 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3    29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3    26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1    35 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2    27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (46) Schneider line 2 Sg4  (48) embryonic 1182-4H  (29) embryonic GM2  (29) embryonic Kc167    18 embryonic S1    21 embryonic S3  (59) leg disc CME L1  (51) wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3  (29) wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3  26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1  (35) CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2  (27) ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    48 embryonic 1182-4H    29 embryonic GM2    29 embryonic Kc167    18 embryonic S1    21 embryonic S3    59 leg disc CME L1    51 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3    29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3    26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1    35 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2    27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    48 embryonic 1182-4H    29 embryonic GM2    29 embryonic Kc167    18 embryonic S1    21 embryonic S3    59 leg disc CME L1    51 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3    29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3    26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1    35 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2    27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    48 embryonic 1182-4H    29 embryonic GM2    29 embryonic Kc167    18 embryonic S1    21 embryonic S3    59 leg disc CME L1    51 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3    29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3    26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1    35 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2    27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (46) Schneider line 2 Sg4  (48) embryonic 1182-4H  29 embryonic GM2  29 embryonic Kc167    18 embryonic S1    21 embryonic S3  (59) leg disc CME L1  (51) wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3  29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3  26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1  (35) CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2  27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    48 embryonic 1182-4H    29 embryonic GM2    29 embryonic Kc167    18 embryonic S1    21 embryonic S3    59 leg disc CME L1    51 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3    29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3    26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1    35 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2    27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    46 Schneider line 2 Sg4    48 embryonic 1182-4H    29 embryonic GM2    29 embryonic Kc167    18 embryonic S1    21 embryonic S3    59 leg disc CME L1    51 wing disc CME-W2    19 wing disc ML-DmD8    21 wing disc ML-DmD9    18 wing disc ML-DmD16-c3    29 wing disc ML-DmD21    12 wing disc ML-DmD32    25 haltere disc ML-DmD17-c3    26 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    16 mixed discs ML-DmD4-c1    35 CNS ML-DmBG1-c1    15 CNS ML-DmBG2-c2    18 tumorous blood cells mbn2    27 ovary fGS/OSS    23 ovary OSC    25 ovary OSS    6 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    22 cold shock, 4-day adult    16 heat shock, 4-day adult    27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult    60 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    38 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3    57 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    51 Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult    47 Paraquat 10 mM 48 hrs, 4-day adult    39 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    22 cold shock, 4-day adult    16 heat shock, 4-day adult  (27) Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult  (60) Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult  (38) Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3  (57) Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (51) Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult  (47) Paraquat 10 mM 48 hrs, 4-day adult  (39) Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    22 cold shock, 4-day adult    16 heat shock, 4-day adult    27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult    60 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    38 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3    57 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    51 Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult    47 Paraquat 10 mM 48 hrs, 4-day adult    39 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 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    22 cold shock, 4-day adult    16 heat shock, 4-day adult    27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult    60 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    38 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3    57 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    51 Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult    47 Paraquat 10 mM 48 hrs, 4-day adult    39 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    22 cold shock, 4-day adult    16 heat shock, 4-day adult    27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult    60 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    38 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3    57 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    51 Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult    47 Paraquat 10 mM 48 hrs, 4-day adult    39 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    22 cold shock, 4-day adult    16 heat shock, 4-day adult  27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult  (60) Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult  (38) Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3  (57) Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult  (51) Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult  (47) Paraquat 10 mM 48 hrs, 4-day adult  (39) Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    22 cold shock, 4-day adult    16 heat shock, 4-day adult    27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult    60 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    38 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3    57 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    51 Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult    47 Paraquat 10 mM 48 hrs, 4-day adult    39 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 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    22 cold shock, 4-day adult    16 heat shock, 4-day adult    27 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    5 Cadmium 50 mM 48 hrs, 4-day adult    25 Cadmium 100 mM 48 hrs, 4-day adult    60 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    38 Zinc 5 mM 12 hrs, larvae L3    7 Zinc 4.5 mM 48 hrs, 4-day adult    14 Ethanol 2.5% 3 hrs, larvae L3    57 Ethanol 5% 3 hrs, larvae L3    6 Ethanol 10% 3 hrs, larvae L3    6 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    51 Caffeine 25 mg/ml 48 hrs, 4-day adult    24 Paraquat 5 mM 48 hrs, 4-day adult    47 Paraquat 10 mM 48 hrs, 4-day adult    39 Rotenone 2 μg 12 hrs, larvae L3    6 Rotenone 8 μg 12 hrs, larvae L3    5 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) mE2_34_mRNA_expression_cluster_13
External Data & Images
Linkouts	BDGP expression data • SD09926
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | embryonic stage | maternal effect, with Scer\GAL4mat.αTub67C.T:Hsim\VP16 bin3EY11308 lethal | embryonic stage | maternal effect (with bin32-7) bin34-7 lethal | embryonic stage | maternal effect (with bin34-7) bin32-7 lethal | embryonic stage | maternal effect (with Df(2R)Drlrv25) bin3KG00599 lethal | recessive bin3SH1014 viable bin3BG01416 bin3EY09582 bin3EY11308 viable, with Scer\GAL4pnr-MD237 bin3GD13872 Sterility Allele fertile bin3EY09582 bin3EY11308 Other Phenotypes Allele smell perception defective bin3BG01416 visible, with Scer\GAL4pnr-MD237 bin3GD13872 Phenotype manifest in Allele cephalopharyngeal skeleton (with bin32-7) bin34-7 cephalopharyngeal skeleton (with bin34-7) bin32-7 embryonic head | maternal effect, with Scer\GAL4mat.αTub67C.T:Hsim\VP16 bin3EY11308 mesothoracic tergum, with Scer\GAL4pnr-MD237 bin3GD13872 tormogen cell, with Scer\GAL4pnr-MD237 bin3GD13872
Classical Alleles ( 49 )
For All Classical Alleles Show
Allele of bin3 Class Mutagen Stocks Known lesion bin35-HA-1020 1 -- bin35-HA-1290 1 -- bin35-HA-1861 1 -- bin35-HA-2413 1 -- bin35-HA-2953 1 -- bin3BG00778 P-element activity 1 -- bin3c03082 piggyBac transposase 1 -- bin3c03245 piggyBac transposase 1 -- bin3c04608 1 -- bin3c05366 piggyBac transposase 1 -- bin3CB-5709-3 1 -- bin3d01219 P-element activity 1 -- bin3d03755 P-element activity 1 -- bin3e02113 piggyBac transposase 1 -- bin3e02231 piggyBac transposase 1 -- bin3e03062 piggyBac transposase 1 -- bin3EY09582 P-element activity 1 -- bin3EY11308 P-element activity 1 -- bin3EY22780 P-element activity 1 -- bin3f02442 piggyBac transposase 1 -- bin3f06612 piggyBac transposase 1 -- bin3f06674 1 -- bin3KG00254 P-element activity 1 -- bin3KG00599 P-element activity 1 -- bin3KG03313 P-element activity 1 -- bin3KG08743 1 -- bin3MI00156 1 -- bin3MI02574 1 -- bin3NP3225 1 -- bin3NP3284 1 -- bin3NP3391 1 -- bin3NP5278 1 -- bin32-7 FLPase 0 Yes bin34-7 FLPase 0 Yes bin3BG01416 0 Yes bin3d01159 P-element activity 0 -- bin3d01198 P-element activity 0 -- bin3d04812 0 -- bin3d07782 P-element activity 0 -- bin3d07999 0 -- bin3d10586 P-element activity 0 -- bin3e04230 piggyBac transposase 0 -- bin3f00149 piggyBac transposase 0 -- bin3f05609 piggyBac transposase 0 -- bin3f05633 piggyBac transposase 0 -- bin3MI08045 0 -- bin3NP4204 0 -- bin3NP4628 0 -- bin3SH1014 P-element activity 0 --
Alleles Carried on Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Allele of bin3 Class Mutagen Stocks Known lesion bin3GD13872 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes bin3KK106875 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes bin3Hsp83.PS in vitro construct - regulatory fusion 0 Yes bin3NIG.8276R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD13872} NA P{KK106875} NA P{NIG.8276R} NA heat-shock construct M{Hsp83-bin3.S} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions Mi{MIC}bin3MI00156 NA Mi{MIC}bin3MI02574 NA Mi{MIC}bin3MI08045 NA P{GT1}bin3BG00778 NA P{GT1}bin3BG01416 NA P{RS3}bin3CB-5709-3 NA P{RS5}bin35-HA-1020 NA P{RS5}bin35-HA-1290 NA P{RS5}bin35-HA-1861 NA P{RS5}bin35-HA-2413 NA P{RS5}bin35-HA-2953 NA P{SUPor-P}bin3KG00254 NA P{SUPor-P}bin3KG00599 NA P{SUPor-P}bin3KG03313 NA P{SUPor-P}bin3KG08743 NA PBac{PB}bin3c03082 NA PBac{PB}bin3c03245 NA PBac{PB}bin3c04608 NA PBac{PB}bin3c05366 NA PBac{RB}bin3e02113 NA PBac{RB}bin3e02231 NA PBac{RB}bin3e03062 NA PBac{RB}bin3e04230 NA PBac{WH}bin3f00149 NA PBac{WH}bin3f02442 NA PBac{WH}bin3f05609 NA PBac{WH}bin3f05633 NA PBac{WH}bin3f06612 NA PBac{WH}bin3f06674 NA insertion of mobile activating element P{EPgy2}bin3EY09582 NA P{EPgy2}bin3EY11308 NA P{EPgy2}bin3EY22780 NA P{XP}bin3d01159 NA P{XP}bin3d01198 NA P{XP}bin3d01219 NA P{XP}bin3d03755 NA P{XP}bin3d04812 NA P{XP}bin3d07782 NA P{XP}bin3d07999 NA P{XP}bin3d10586 NA insertion of enhancer trap P{lacW}bin3SH1014 No insertion of enhancer trap binary system P{GawB}bin3NP3225 No P{GawB}bin3NP3284 No P{GawB}bin3NP3391 No P{GawB}bin3NP4204 No P{GawB}bin3NP4628 No P{GawB}bin3NP5278 No
Gene Ontology: Function, Process & Cellular Component ( 6 unique terms )
	There is no information supporting a cellular component term for this gene. (Based on a review of available data on: 2011-06-24)
Terms Based on Experimental Evidence ( 4 terms )
Molecular Function
CV term Evidence References
RNA polymerase II transcription factor binding inferred from physical interaction with bcd (Zhu and Hanes, 2000) snRNA binding inferred from direct assay (Singh et al., 2011)
Biological Process
CV term Evidence References
negative regulation of translation inferred from mutant phenotype (Singh et al., 2011) olfactory behavior inferred from mutant phenotype (Sambandan et al., 2006)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 2 terms )
Molecular Function
CV term Evidence References
methyltransferase activity inferred from sequence or structural similarity with Saccharomyces HMT1 (Zhu and Hanes, 2000)
Biological Process
CV term Evidence References
methylation inferred from sequence or structural similarity with Saccharomyces HMT1 (Zhu and Hanes, 2000)
Cellular Component ( 0 terms)
Sequence Ontology: Class of Gene
	gene   nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
bin3 - bcd pull down, autoradiography, two hybrid (Zhu and Hanes, 2000)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions bin3 allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0263144
Orthologs
OrthoDB Orthologs (22) - 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 EOG6V702D Dipteran inclusive ortholog search EOG68KRKH Insect inclusive ortholog search EOG6189HM Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (EOG6V702D)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\bin3     Drosophila simulans   Dsim\GD10403 Y   Drosophila sechellia   Dsec\GM16541 Y   Drosophila erecta   Dere\GG23201 Y   Drosophila yakuba   Dyak\GE20781 Y   Drosophila ananassae   Dana\GF11051 Y   Drosophila ananassae   Dana\GF11891     Drosophila pseudoobscura pseudoobscura   Dpse\GA26118 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA20948     Drosophila persimilis   Dper\GL20337 Y   Drosophila willistoni   Dwil\GK19498 Y   Drosophila virilis   Dvir\GJ21451 Y   Drosophila mojavensis   Dmoj\GI18374 Y   Drosophila grimshawi   Dgri\GH20938 Y
Orthologs in non-Drosophila Dipterans (EOG68KRKH)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL003540 Y Aedes aegypti Yellow fever mosquito  Aaeg\AAEL006787 Y Anopheles gambiae Malaria mosquito  Agam\AGAP012087 Y Anopheles gambiae Malaria mosquito  Agam\AGAP003278 Y Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ006467 Y Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ000796 Y Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ001408 Y
Orthologs in non-Dipteran Insects (EOG6189HM)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Bombyx mori Silkmoth  Bmor\BGIBMGA006788
Orthologs in non-Insect Arthropods (None identified)
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (11) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD10403 Drosophila sechellia Dsec\GM16541 Drosophila erecta Dere\GG23201 Drosophila yakuba Dyak\GE20781 Drosophila ananassae Dana\GF11051 Drosophila pseudoobscura pseudoobscura Dpse\GA26118 Drosophila persimilis Dper\GL20337 Drosophila willistoni Dwil\GK19498 Drosophila virilis Dvir\GJ21451 Drosophila mojavensis Dmoj\GI18374 Drosophila grimshawi Dgri\GH20938
Stocks & Reagents
Stocks Listed in FlyBase ( 34 )
Harvard	- P{XP}bin3d01219 - P{XP}bin3d03755 - PBac{PB}bin3c03245 - PBac{PB}bin3c04608 - PBac{PB}bin3c05366 - PBac{RB}bin3e02113 - PBac{RB}bin3e02231 - PBac{RB}bin3e03062 - PBac{WH}bin3f02442 - PBac{WH}bin3f06612 - PBac{WH}bin3f06674
VDRC	v101090 P{KK106875}VIE-260B
	More stocks available...
Genomic Clones ( 1 )
	BACR08A11 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 71 )
	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	RE52324 SD09926
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GM08619 HL01827 RE04877 RE09050 RE12660 RE27592 RE33486 RE40968 RE42340 RE44377 RE44533 RE49619 RE52320 RE63209 RE63279 RE66420 RE67201 RH02760 RH40459 RH46968 RH62430 RH64014
Other clones	315 30040 30128 31164 40423 40487 53368 56463 56621 80139 99125 158624 166119 192444 214279.53 214289.46 273249 AT01316 CK01.22C.G4 CK01.36D.G8 CK01.89C.H9 Dmel_dig_015828_0626_3089 Dmel_dig_017012_0701_1524 Dmel_dig_017073_0583_2898 Dmel_neb_010089_0825_2179 Dmel_neb_012686_0871_2315 EK031360 EK070523 EK105325 EK138535 EK139811 EK158803 EK167707 EK169161 EK169218 EK170834 EK198013 EK212522 EK271061 EK299931 EP03142 EP03812 EP21606 EP22312 GM05845 UUGC0608 UUGC0610
RNAi & Array Information
Linkouts	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35552
Antibody Information
	polyclonal (Singh et al., 2011)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: bin3 CG8276 (FlyBase, 1996-)
Source for database merge of	Source for merge of: bin3 l(2)SH1014 (FlyBase, 1996-)
Additional comments	"bin3" may correspond to "Scim20". Sequence analysis off ends of P{SUPor-P} in Scim insertion mutant places "Scim20" near/in "Pld" or "bin3". (Dobie and Karpen, 2001.4.18) Source for identity of bin3 CG8276 was sequence comparison (date:000414). (FlyBase, 1996-)
Other Comments
	Gene expression is increased in response to the presence of two copies of Scer\GAL4hs.PB. (Liu and Lehmann, 2008) 4 alleles of l(2)SH1014 recovered in a P-insertion screen. (Oh et al., 2003) Identification: Interacts with bcd protein bound to DNA in a modified yeast two-hybrid screen. (Zhu and Hanes, 1998)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_078902 NM_165468 NM_001273795 RefSeq (Proteins) • NP_523626 NP_724468 NP_001260724 DDBJ / EMBL / GenBank • AA567814 AA696878 AA802570 AAF57267 AAF63187 AAK93566 AAM68350 AAO47868 AB082349 AF097636 AGB93258 AI543228 AW944612 AY052142 BG633666 BH740676 BH840516 BI366726 BT004890 CL610243 CL844439 CZ468405 CZ468529 CZ469914 CZ469915 CZ472066 CZ472084 CZ472103 CZ473536 CZ475922 CZ477337 CZ479939 CZ480058 CZ480830 CZ481976 CZ482635 CZ484957 CZ484958 CZ488210 CZ488243 CZ488244 CZ489315 CZ489316 Entrez Gene - A searchable database of RefSeq genes. • 35552 UniProtKB/Swiss-Prot • Q7K480 UniProtKB/TrEMBL • E2QC61
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Methyltransferase domain (IPR025714) Bin3-type S-adenosyl-L-methionine binding domain (IPR024160) Bicoid-interacting 3 (IPR010675) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • SD09926
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0263144 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35552
Synonyms & Secondary IDs ( 8 )
Reported As
Symbol Synonym	bin3 (Nguyen et al., 2012, LaLonde et al., 2006, Liu and Lehmann, 2008, Ayroles et al., 2009, Harbison et al., 2009, Japanese National Institute of Genetics, 2012.5.21) Bin3 (Singh et al., 2011, Zhu and Hanes, 1998, ) CG8276 (Dobie and Karpen, 2001.4.18, Zhu, 2000.10.31, Keleman et al., 2009.8.5) l(2)SH2 1014 (Oh et al., 2002.3.24) l(2)SH1014
Name Synonym	bicoid-interacting protein 3 (Zhu, 1998.10.6, LaLonde et al., 2006, Sambandan et al., 2006, Tadros et al., 2007, Harbison et al., 2009, ) Bicoid interacting protein 3 (Zhu and Hanes, 1998) lethal (2) SH1014
Secondary FlyBase IDs
	FBgn0024490 FBgn0033073 FBgn0065556
References ( 38 )
Generate a list of	All references relating to this gene ( 38 )
List References by type	Research paper  ( 12 ) Supplementary material  ( 4 ) Personal communication to FlyBase  ( 12 ) Abstract  ( 2 ) FlyBase analysis  ( 4 ) DNA/RNA sequence record  ( 2 ) Stock list  ( 1 ) Website  ( 1 )
Recent research papers ( 4 )
	Adamson and Lajeunesse, 2012, ScientificWorldJournal 2012: 347597 A Study of Epstein-Barr Virus BRLF1 Activity in a Drosophila Model System. [FBrf0218446] Krauchunas et al., 2012, Dev. Biol. 370(1): 125--134 Protein phosphorylation changes reveal new candidates in the regulation of egg activation and early embryogenesis in D. melanogaster. [FBrf0219342] Nguyen et al., 2012, Nucleic Acids Res. 40(12): 5283--5297 The Drosophila 7SK snRNP and the essential role of dHEXIM in development. [FBrf0218831] Singh et al., 2011, Dev. Biol. 352(1): 104--115 The Bin3 RNA methyltransferase is required for repression of caudal translation in the Drosophila embryo. [FBrf0213172] Show all research papers ...