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Gene Dmel\rnh1

General Information
Symbol	Dmel\rnh1	Species	D. melanogaster
Name	ribonuclease H1	Annotation symbol	CG8729
Feature type	protein_coding_gene	FlyBase ID	FBgn0023171
Gene Model Status	Current	Stock availability	4 publicly available
Genomic Location
Chromosome (arm)	2R	Recombination map	2-
Cytogenetic map	43F2-43F2	Sequence location	2R:3,818,559..3,819,885 [-]
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 ribonuclease H1 is referred to in FlyBase by the symbol Dmel\rnh1 (CG8729, FBgn0023171). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: ribonuclease H activity. The biological processes in which it is involved are not known. 10 alleles are reported. The phenotypes of these alleles are annotated with: stage P4(ii) prepupa; melanotic mass; embryonic/larval central nervous system. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Ribonuclease H domain; Ribonuclease H-like domain; Ribonuclease H1, N-terminal; Ribonuclease H1, eukaryote; Ribosomal protein L9/RNase H1, N-terminal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages, in stages of adults of both sexes. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval central nervous system, adult salivary gland, adult ovary, adult testis. Comments on Affy2 ProbeSet: ProbeSet 1624030_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of rnh1. Gene sequence location is 2R:3818559..3819885.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 43F2-43F2   Limits computationally determined from genome sequence between P{lacW}lin19k01207&P{lacW}rnh1k07624 and P{lacW}CSN4k08018&P{lacW}l(2)k08504k08504
Experimentally Determined Cytological Location
Cytogenetic map Notes References 43F1-43F2   (determined by in situ hybridisation)   (Spradling et al., 1999) 43F-43F   (determined by in situ hybridisation)   (Filippov et al., 1997) 43F1-43F5   (determined by in situ hybridisation)   (Filippov et al., 1997) 43F1-43F2   43F3--4   (BDGP Project Members, 1994-1999)
Experimentally Determined Recombination Data
Location	2- (Filippov et al., 1997)
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\rnh1 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 5.49
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) rnh1-RA FBtr0088883  NM_057967   1108   333 rnh1-RB FBtr0088884  NM_206055   1051   314
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein rnh1-PA   FBpp0087959   37.1   333   8.93     NP_477315   AAF59170 rnh1-PB   FBpp0089188   35.2   314   9.23     NP_995777   AAS64899
Additional Polypeptide Data & Comments
Reported size (kDa)	333 (aa); 37 (kD predicted) (Filippov et al., 1997)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Ribonuclease H1, N-terminal (IPR011320) Ribonuclease H domain (IPR002156) Ribosomal protein L9/RNase H1, N-terminal (IPR009027) Ribonuclease H-like domain (IPR012337) Ribonuclease H1, eukaryote (IPR017067)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA142008   AA816851   AE013599 AAF59170   AE013599 AAS64899   AC005448   AF032921 AAC47810   AQ025841   AY089374 AAL90112   BE976835   BE978863   BF487149   BF503446   BI237246   BI356651   BI368626   BI368651   BP546087   BP551820   BP551821   CO320140   GH941141   GH941646   GH942920   GH944999   GH952758   GH954753   GH954841   GH954960   GH957583   GH958695   GH959955   GH962330   GH963273   GH964267   GH965837   GH966927   GH967923   GH968870   GH974771   GH979290   GH981024   GH982783   GH983145   GH983917   GH984121   GH984515   GH984776   GH984838   GH984921
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	A1Z768 Q7JY33 O44114
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
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: larval central nervous system, adult salivary gland, adult ovary, adult testis. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    108.675 Larval Midgut    36.2 Larval Hindgut    47.7 Larval Malpighian Tubules    49.9 Larval Fat Body    89.4 Larval Salivary Gland    83 Larval Trachea    71.15 Larval Carcass    23.875 Adult Head    35 Adult Eye    44.75 Adult Brain    67.4 Adult Thoracic-Abdominal Ganglion    64 Adult Crop    48.9 Adult Midgut    71 Adult Hindgut    44.3 Adult Malpighian Tubules    47.7 Adult Fat Body    25 Adult Salivary Gland    121.7 Adult Heart    40.125 Adult VirginFemale Spermatheca    20.6 Adult InseminatedFemale Spermatheca    30.3 Adult Ovary    102.2 Adult Testis    179.8 Adult Male Accessory Gland    66.1 Adult Carcass    24.2 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland     Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland     Adult Carcass     FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    35   NA  Eye    44.75   NA  Brain    67.4   108.675  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    64   NA  Crop    48.9   36.2  Midgut    71   47.7  Hindgut    44.3   49.9  Malpighian Tubules    47.7   89.4  Fat Body    25   83  Salivary Gland    121.7   NA  Heart    40.125   71.15  Trachea    NA   NA  VirginFemale Spermatheca    20.6   NA  InseminatedFemale Spermatheca    30.3   NA  Ovary    102.2   NA  Testis    179.8   NA  Male Accessory Gland    66.1   23.875  Carcass    no informative data FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Tissue Expression Data (modENCODE_mRNA-Seq_tissues)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    21 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female    26 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    21 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8  (27) carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female  26 testis, mated 4-day male  (37) accessory gland, mated 4-day male    6 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    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female    26 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 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    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female    26 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 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    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female    26 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    21 central nervous system, larvae L3    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8  27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female  26 testis, mated 4-day male  (37) accessory gland, mated 4-day male    6 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    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female    26 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 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    15 central nervous system, pupae P8    11 head, virgin 1-day female    5 head, virgin 4-day female    5 head, virgin 20-day female    3 head, mated 1-day female    5 head, mated 4-day female    8 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    8 head, mated 20-day male    11 salivary gland, larvae L3 wandering    9 salivary gland, white prepupae    10 digestive system, larvae L3 wandering    7 digestive system, 1-day adult    9 digestive system, 4-day adult    12 digestive system, 20-day adult    6 fat body, larvae L3 wandering    3 fat body, white prepupae    10 fat body, pupae P8    27 carcass, larvae L3 wandering    9 carcass, 1-day adult    4 carcass, 4-day adult    6 carcass, 20-day adult    5 ovary, virgin 4-day female    25 ovary, mated 4-day female    26 testis, mated 4-day male    37 accessory gland, mated 4-day male    6 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages, in stages of adults of both sexes. [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    33 embryo 02-04hr    42 embryo 04-06hr    33 embryo 06-08hr    30 embryo 08-10hr    27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (33) embryo 02-04hr  (42) embryo 04-06hr  (33) embryo 06-08hr  (30) embryo 08-10hr  (27) embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    33 embryo 02-04hr    42 embryo 04-06hr    33 embryo 06-08hr    30 embryo 08-10hr    27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 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    33 embryo 02-04hr    42 embryo 04-06hr    33 embryo 06-08hr    30 embryo 08-10hr    27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    33 embryo 02-04hr    42 embryo 04-06hr    33 embryo 06-08hr    30 embryo 08-10hr    27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (33) embryo 02-04hr  (42) embryo 04-06hr  (33) embryo 06-08hr  30 embryo 08-10hr  27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    33 embryo 02-04hr    42 embryo 04-06hr    33 embryo 06-08hr    30 embryo 08-10hr    27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 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    33 embryo 02-04hr    42 embryo 04-06hr    33 embryo 06-08hr    30 embryo 08-10hr    27 embryo 10-12hr    15 embryo 12-14hr    14 embryo 14-16hr    8 embryo 16-18hr    8 embryo 18-20hr    6 embryo 20-22hr    11 embryo 22-24hr    11 larva L1    8 larva L2    11 larva L3 12hr old    8 larva L3 puffstage 1-2    9 larva L3 puffstage 3-6    12 larva L3 puffstage 7-9    15 white prepupae new    13 white prepupae 12hr    17 white prepupae 24hr    18 pupae 2d postWPP    19 pupae 3d postWPP    17 pupae 4d postWPP    12 adult male 01day    20 adult male 05day    24 adult male 30day    21 adult female 01day    13 adult female 05day    22 adult female 30day    24 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Cell Line Expression Data (modENCODE_mRNA-Seq_cell.A) (modENCODE_mRNA-Seq_cell.B)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    91 Schneider line 2 Sg4    25 embryonic 1182-4H    35 embryonic GM2    28 embryonic Kc167    42 embryonic S1    32 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    43 wing disc ML-DmD8    26 wing disc ML-DmD9    29 wing disc ML-DmD16-c3    28 wing disc ML-DmD21    22 wing disc ML-DmD32    54 haltere disc ML-DmD17-c3    37 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1    52 CNS ML-DmBG2-c2    36 tumorous blood cells mbn2    28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (91) Schneider line 2 Sg4    25 embryonic 1182-4H  (35) embryonic GM2  (28) embryonic Kc167  (42) embryonic S1  (32) embryonic S3  (36) leg disc CME L1  (38) wing disc CME-W2  (43) wing disc ML-DmD8  26 wing disc ML-DmD9  (29) wing disc ML-DmD16-c3  (28) wing disc ML-DmD21    22 wing disc ML-DmD32  (54) haltere disc ML-DmD17-c3  (37) eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5  (29) mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1  (52) CNS ML-DmBG2-c2  (36) tumorous blood cells mbn2  (28) ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    91 Schneider line 2 Sg4    25 embryonic 1182-4H    35 embryonic GM2    28 embryonic Kc167    42 embryonic S1    32 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    43 wing disc ML-DmD8    26 wing disc ML-DmD9    29 wing disc ML-DmD16-c3    28 wing disc ML-DmD21    22 wing disc ML-DmD32    54 haltere disc ML-DmD17-c3    37 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1    52 CNS ML-DmBG2-c2    36 tumorous blood cells mbn2    28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 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+    91 Schneider line 2 Sg4    25 embryonic 1182-4H    35 embryonic GM2    28 embryonic Kc167    42 embryonic S1    32 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    43 wing disc ML-DmD8    26 wing disc ML-DmD9    29 wing disc ML-DmD16-c3    28 wing disc ML-DmD21    22 wing disc ML-DmD32    54 haltere disc ML-DmD17-c3    37 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1    52 CNS ML-DmBG2-c2    36 tumorous blood cells mbn2    28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    91 Schneider line 2 Sg4    25 embryonic 1182-4H    35 embryonic GM2    28 embryonic Kc167    42 embryonic S1    32 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    43 wing disc ML-DmD8    26 wing disc ML-DmD9    29 wing disc ML-DmD16-c3    28 wing disc ML-DmD21    22 wing disc ML-DmD32    54 haltere disc ML-DmD17-c3    37 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1    52 CNS ML-DmBG2-c2    36 tumorous blood cells mbn2    28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+  (91) Schneider line 2 Sg4    25 embryonic 1182-4H  (35) embryonic GM2  28 embryonic Kc167  (42) embryonic S1  32 embryonic S3  (36) leg disc CME L1  (38) wing disc CME-W2  (43) wing disc ML-DmD8  26 wing disc ML-DmD9  29 wing disc ML-DmD16-c3  28 wing disc ML-DmD21    22 wing disc ML-DmD32  (54) haltere disc ML-DmD17-c3  (37) eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5  29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1  (52) CNS ML-DmBG2-c2  (36) tumorous blood cells mbn2  28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    91 Schneider line 2 Sg4    25 embryonic 1182-4H    35 embryonic GM2    28 embryonic Kc167    42 embryonic S1    32 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    43 wing disc ML-DmD8    26 wing disc ML-DmD9    29 wing disc ML-DmD16-c3    28 wing disc ML-DmD21    22 wing disc ML-DmD32    54 haltere disc ML-DmD17-c3    37 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1    52 CNS ML-DmBG2-c2    36 tumorous blood cells mbn2    28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 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+    91 Schneider line 2 Sg4    25 embryonic 1182-4H    35 embryonic GM2    28 embryonic Kc167    42 embryonic S1    32 embryonic S3    36 leg disc CME L1    38 wing disc CME-W2    43 wing disc ML-DmD8    26 wing disc ML-DmD9    29 wing disc ML-DmD16-c3    28 wing disc ML-DmD21    22 wing disc ML-DmD32    54 haltere disc ML-DmD17-c3    37 eye-antennal disc ML-DmD11    23 antennal disc ML-DmD20-c5    29 mixed discs ML-DmD4-c1    22 CNS ML-DmBG1-c1    52 CNS ML-DmBG2-c2    36 tumorous blood cells mbn2    28 ovary fGS/OSS    22 ovary OSC    19 ovary OSS    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Cell Line   Expression Level Schneider line 2 S2R+     Schneider line 2 Sg4     embryonic 1182-4H     embryonic GM2     embryonic Kc167     embryonic S1     embryonic S3     leg disc CME L1     wing disc CME-W2     wing disc ML-DmD8     wing disc ML-DmD9     wing disc ML-DmD16-c3     wing disc ML-DmD21     wing disc ML-DmD32     haltere disc ML-DmD17-c3     eye-antennal disc ML-DmD11     antennal disc ML-DmD20-c5     mixed discs ML-DmD4-c1     CNS ML-DmBG1-c1     CNS ML-DmBG2-c2     tumorous blood cells mbn2     ovary fGS/OSS     ovary OSC     ovary OSS
modENCODE Treatments RNA-Seq
modENCODE Treatment Expression Data (modENCODE_mRNA-Seq_treatments)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 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    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 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    8 cold shock, 4-day adult    9 heat shock, 4-day adult    18 Cadmium 50 mM 6 hrs, larvae L3    6 Cadmium 50 mM 12 hrs, larvae L3    14 Cadmium 50 mM 48 hrs, 4-day adult    10 Cadmium 100 mM 48 hrs, 4-day adult    21 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    16 Zinc 5 mM 12 hrs, larvae L3    6 Zinc 4.5 mM 48 hrs, 4-day adult    16 Ethanol 2.5% 3 hrs, larvae L3    20 Ethanol 5% 3 hrs, larvae L3    11 Ethanol 10% 3 hrs, larvae L3    10 Caffeine 1.5 mg/ml 4 hrs, larvae L3    8 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    23 Caffeine 25 mg/ml 48 hrs, 4-day adult    8 Paraquat 5 mM 48 hrs, 4-day adult    20 Paraquat 10 mM 48 hrs, 4-day adult    22 Rotenone 2 μg 12 hrs, larvae L3    8 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Treatment   Expression Level extended cold, 4-day adult     cold shock, 4-day adult     heat shock, 4-day adult     Cadmium 50 mM 6 hrs, larvae L3     Cadmium 50 mM 12 hrs, larvae L3     Cadmium 50 mM 48 hrs, 4-day adult     Cadmium 100 mM 48 hrs, 4-day adult     Copper 0.5 mM 12 hrs, larvae L3     Copper 15 mM 48 hrs, 4-day adult     Zinc 5 mM 12 hrs, larvae L3     Zinc 4.5 mM 48 hrs, 4-day adult     Ethanol 2.5% 3 hrs, larvae L3     Ethanol 5% 3 hrs, larvae L3     Ethanol 10% 3 hrs, larvae L3     Caffeine 1.5 mg/ml 4 hrs, larvae L3     Caffeine 2.5 mg/ml 48 hrs, 4-day adult     Caffeine 25 mg/ml 48 hrs, 4-day adult     Paraquat 5 mM 48 hrs, 4-day adult     Paraquat 10 mM 48 hrs, 4-day adult     Rotenone 2 μg 12 hrs, larvae L3     Rotenone 8 μg 12 hrs, larvae L3
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_21 mE1_20_mRNA_expression_cluster_09
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0023171 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG8729-RA
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | prepupal stage | recessive rnh11 rnh1unspecified lethal | pupal stage rnh178.41 rnh178 lethal | recessive rnh1k07409a rnh1k07624 viable, with Scer\GAL4pnr-MD237 rnh1GD5333 Other Phenotypes Allele developmental rate defective rnh11 melanotic mass phenotype | prepupal stage | recessive rnh11 Phenotype manifest in Allele embryonic/larval central nervous system rnh11 imaginal disc | larval stage rnh11 melanotic mass rnh11 stage P4(ii) prepupa rnh11 rnh1unspecified
Classical Alleles ( 6 )
For All Classical Alleles Show
Allele of rnh1 Class Mutagen Stocks Known lesion rnh1k07624 P-element activity 2 Yes rnh11 Delta2-3 0 Yes rnh178.41 P-element activity 0 Yes rnh178 P-element activity 0 Yes rnh1k07409a P-element activity 0 -- rnh1unspecified 0 --
Alleles Carried on Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Allele of rnh1 Class Mutagen Stocks Known lesion rnh1GD5333 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes rnh1+t2.8 in vitro construct - genomic fragment 0 Yes rnh1KK109098 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes rnh1NIG.8729R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)BSC265 (Christensen and Cook, 2007.3.22) Df(2R)CA53 (Spradling et al., 1999, BDGP Project Members, 1994-1999) Df(2R)Exel6055 (Ryder, 2004.4.26) Df(2R)nap16 (Spradling et al., 1999, BDGP Project Members, 1994-1999)
Not disrupted in	Df(2R)H3C1 (Spradling et al., 1999, BDGP Project Members, 1994-1999) Df(2R)ST1 (Spradling et al., 1999, BDGP Project Members, 1994-1999)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD5333} NA P{KK109098} NA P{NIG.8729R} NA characterization construct P{rnh1+t2.8} NA
Insertions
	Type of insertions Name Expression data insertion of enhancer trap P{lacW}rnh1k07409a No P{lacW}rnh1k07624 No miscellaneous insertions P{}rnh178 NA
Gene Ontology: Function, Process & Cellular Component ( 3 unique terms )
Terms Based on Experimental Evidence ( 1 term )
Molecular Function
CV term Evidence References
ribonuclease H activity inferred from direct assay (Filippov et al., 1997)
Biological Process ( 0 terms)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
magnesium ion binding inferred from electronic annotation with InterPro:IPR017067 (FlyBase Curators et al., 2004-) nucleic acid binding inferred from electronic annotation with InterPro:IPR002156, InterPro:IPR012337 (FlyBase Curators et al., 2004-) ribonuclease H activity inferred from sequence or structural similarity (Spradling et al., 1999)
Biological Process ( 0 terms)
Cellular Component ( 0 terms)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
rnh1 - Cypl anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions rnh1 allele Gene References
External Data
Linkouts	DPiM - DPiM, Drosophila Protein interaction Map • FBgn0023171 DroID - A comprehensive database of gene and protein interactions. • FBgn0023171 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 35746
Orthologs
OrthoDB Orthologs (41) - 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 EOG68WCP3 Dipteran inclusive ortholog search EOG6VQ9Z8 Insect inclusive ortholog search EOG6189JJ Arthropod inclusive ortholog search EOG6DFN4N Metazoa inclusive ortholog search EOG6NSG5W
Orthologs in Drosophila Species (EOG68WCP3)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\rnh1     Drosophila pseudoobscura pseudoobscura   Dpse\GA21286 Y
Orthologs in non-Drosophila Dipterans (EOG6VQ9Z8)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL017101   Anopheles gambiae Malaria mosquito  Agam\AGAP008088   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ006722   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ802361   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ801673
Orthologs in non-Dipteran Insects (EOG6189JJ)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\rnh1   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG021273   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH20283   Atta cephalotes Leafcutter ant  Acep\ACEP23816   Camponotus floridanus Florida carpenter ant  Cflo\CFLO23036   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL23486   Linepithema humile Argentine ant  Lhum\LH13737   Pogonomyrmex barbatus Red harvester ant  Pbar\PB18556   Solenopsis invicta Red fire ant  Sinv\SINV17567   Acyrthosiphon pisum Pea aphid  Apim\ACYPI001687   Acyrthosiphon pisum Pea aphid  Apim\ACYPI28043   Acyrthosiphon pisum Pea aphid  Apim\ACYPI072782   Bombyx mori Silkmoth  Bmor\BGIBMGA003375   Pediculus humanus Human body louse  Phum\PHUM171670   Tribolium castaneum Red flour beetle  Tcas\TC004604
Orthologs in non-Insect Arthropods (EOG6DFN4N)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_35962   Daphnia pulex Water flea  Dpux\JGI_V11_301828   Daphnia pulex Water flea  Dpux\JGI_V11_223388   Daphnia pulex Water flea  Dpux\COI   Ixodes scapularis Deer tick  Isca\ISCW016032   Ixodes scapularis Deer tick  Isca\ISCW014172
Orthologs in non-Arthropod Metazoa (EOG6NSG5W)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\rnh-1.0   Caenorhabditis elegans Nematode  Cele\rnh-1.1   Caenorhabditis elegans Nematode  Cele\rnh-1.2   Caenorhabditis elegans Nematode  Cele\rnh-1.3   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_021324gn   Danio rerio Zebrafish  Drer\rnaseh1   Xenopus tropicalis Western clawed frog  Xtro\ENSXETG00000030371   Xenopus tropicalis Western clawed frog  Xtro\rnaseh1   Gallus gallus Domestic chicken  Ggal\RNASEH1   Mus musculus House mouse  Mmus\Rnaseh1   Rattus norvegicus Norway rat  Rnor\Rnaseh1   Homo sapiens Human  Hsap\RNASEH1   Homo sapiens Human  Hsap\ENSG00000255767
Human Orthologs (2)
Gene OMIM HGNC Hsap\RNASEH1     Hsap\ENSG00000255767
AAA Orthologs (1) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila pseudoobscura pseudoobscura Dpse\GA21286
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Bloomington	10677 y1 w67c23; P{lacW}rnh1k07624/CyO
Kyoto	111220 yd2 w1118 P{ey-FLP.N}2 P{GMR-lacZ.C(38.1)}TPN1; P{neoFRT}42D P{lacW}rnh1k07624 /CyO y+
VDRC	v15533 w1118; P{GD5333}v15533 v15534 w1118; P{GD5333}v15534
Genomic Clones ( 1 )
	BACR26A16 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 42 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones	AT19436
Other clones	DPiM_AT19436
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT21854 RE33437 RE42841 RE54622 RE54657
Other clones	bs56e09 bs83g09 CK00116 EK282507 FGH102F11 FGM215A04 RP004026344 RP004055225 RP004105845 RP004107681 RP004109527 RP004135457 RP004139809 RP004197373 RP004201898 RP004204031 RP004213132 RP004216472 RP004236471 RP004236645 RP004252268 RP004253668 RP004263690 RP004270306 RP004356736 RP004449566 RP004461443 RP004474032 RP004486799 RP004507394 RP004509115 RP004517354 RP004526330 RP004550877 RP004551735
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0023171 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35746
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: rnh1 l(2)43Fa (Filippova et al., 1998) Source for merge of: rnh1 l(2)k07624 l(2)k07409 (Spradling et al., 1999)
Additional comments
Other Comments
	The l(2)43F1-5 mutants contain P-element insertion in the open reading frame of rnh1. (Filippova et al., 1998) Gene isolated in a screen of the second chromosome identifying mutants affecting disc morphology. (Roch et al., 1998) rnh1 is required for imaginal disc morphogenesis. (Filippov et al., 1997) rnh1 has been cloned. (Filippov et al., 1997)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_057967 NM_206055 RefSeq (Proteins) • NP_477315 NP_995777 DDBJ / EMBL / GenBank • AA816851 AAC47810 AAF59170 AAL90112 AAS64899 AC005448 AF032921 AQ025841 AY089374 BF503446 Entrez Gene - A searchable database of RefSeq genes. • 35746 UniProtKB/TrEMBL • A1Z768 O44114 Q7JY33
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Ribonuclease H1, N-terminal (IPR011320) Ribonuclease H domain (IPR002156) Ribosomal protein L9/RNase H1, N-terminal (IPR009027) Ribonuclease H-like domain (IPR012337) Ribonuclease H1, eukaryote (IPR017067)
Linkouts
	DPiM - DPiM, Drosophila Protein interaction Map • FBgn0023171 DroID - A comprehensive database of gene and protein interactions. • FBgn0023171 DRSC - Results from RNAi screens. • FBgn0023171 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0023171 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG8729-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0023171 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35746 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 35746 modMine - Data generated by the modENCODE project. • FBgn0023171
Synonyms & Secondary IDs ( 12 )
Reported As
Symbol Synonym	74/9 (Roch et al., 1998) CG8729 (Keleman et al., 2009.8.5) l(2)43F1-5 (Filippov et al., 1997, ) l(2)43Fa   l(2)k07409   l(2)k07624 (BDGP Project Members, 1994-1999, ) RNase H1 (Filippov et al., 2001) RnH1   rnh1 (Christensen and Cook, 2007.3.22, Japanese National Institute of Genetics, 2012.5.21) rnhl (Elmore and Smith, 2001)
Name Synonym	ribonuclease H1 (Spradling et al., 1999) RNaseH1
Secondary FlyBase IDs
	FBgn0020291 FBgn0022077 FBgn0024594
References ( 24 )
Generate a list of	All references relating to this gene ( 24 )
List References by type	Research paper  ( 5 ) Supplementary material  ( 3 ) Personal communication to FlyBase  ( 9 ) Abstract  ( 2 ) FlyBase analysis  ( 2 ) Stock list  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers (0)
	All research papers listed in FlyBase were published before 2011 Show research papers ...