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Gene Dmel\RnpS1

General Information
Symbol	Dmel\RnpS1	Species	D. melanogaster
Name	RNA-binding protein S1	Annotation symbol	CG16788
Feature type	protein_coding_gene	FlyBase ID	FBgn0037707
Gene Model Status	Current	Stock availability	3 publicly available
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	85D24-85D24	Sequence location	3R:5,377,765..5,379,469 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene RNA-binding protein S1 is referred to in FlyBase by the symbol Dmel\RnpS1 (CG16788, FBgn0037707). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: mRNA binding. It is reported to be involved in the biological process: nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. 9 alleles are reported. The phenotype of these alleles is annotated with: intersegmental nerve. It has one annotated transcript and one annotated polypeptide. Protein features are: Nucleotide-binding, alpha-beta plait; RNA recognition motif domain. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, adult ovary. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult central nervous system, adult crop, larval hindgut, larval fat body, larval/adult salivary gland, larval trachea, adult male reproductive system, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1633915_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of RnpS1. Gene sequence location is 3R:5377765..5379469.
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.
FB2012_01	Sequence features HFA15154 BKN21156
FB2011_10	References Knowles-Barley, 2011.8.24, BrainTrap expression curation.
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 85D24-85D24   Limits computationally determined from genome sequence between P{PZ}ps10615&P{PZ}Ras85D06677 and P{EP}CG9393EP3122
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\RnpS1 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) RnpS1-RA FBtr0082066  NM_141646   1361   374
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 RnpS1-PA   FBpp0081544   41.8   374   12.40     NP_649903   AAF54396
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • RNA recognition motif domain (IPR000504) Nucleotide-binding, alpha-beta plait (IPR012677)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA820315   AA820322   AA942134   AA951371   AE014297 AAF54396   AI455391   AI455596   AI456084   AI456581   AI515076   AI515844   AI944481   AJ459409 CAD30680   AQ025170   AY118927 AAM50787   BI164973   BI166631   BI215788   BI241633   BI590554   BI614463   CO306524   CO321810   CO323625   CZ468313   EC053786   EC062848   EC074614   EC075654   EC243209   EC248954   EC253870   EV584407
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9VHC0
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
northern blot Stage Tissue/Position (including subcellular localization) Reference     (Gatfield and Izaurralde, 2002) Comment:expression assayed in cultured cells
Additional Descriptive Data
	RnpS1 transcripts are expressed in S2 cells. (Gatfield and Izaurralde, 2002)
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
western blot Stage Tissue/Position (including subcellular localization) Reference     (Gatfield and Izaurralde, 2002) Comment:expression assayed in cultured cells
Additional Descriptive Data
	RnpS1 protein isdetected in S2 cells. (Gatfield and Izaurralde, 2002)
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. modENCODE Temporal Expression Data for FBgn0037707    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0037707 Very low expression bin max 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 very high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No expression (0 - 0)   Extremely low expression (1 - 10)   Very low expression (11 - 100)   Low expression (101 - 400)   Moderate expression (401 - 1400)   Moderately high expression (1401 - 4000)   High expression (4001 - 10000)   Very high expression (10001 - 100000)   Extremely high expression (100001 - 2000000) Linear, scaled to maximum FBgn0037707 expression level Developmental Stage   Expression Level embryo 00-02hr    8234 embryo 02-04hr    12641 embryo 04-06hr    12910 embryo 06-08hr    11300 embryo 08-10hr    8554 embryo 10-12hr    7905 embryo 12-14hr    3832 embryo 14-16hr    3957 embryo 16-18hr    2388 embryo 18-20hr    1749 embryo 20-22hr    1667 embryo 22-24hr    1506 larva L1    2128 larva L2    2055 larva L3 12hr old    1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6    1830 larva L3 puffstage 7-9    2021 white prepupae new    2081 white prepupae 12hr    2468 white prepupae 24hr    3268 pupae 2d postWPP    2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day    1686 adult male 30day    1335 adult female 01day    2360 adult female 05day    3483 adult female 30day    3962 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (8234) embryo 02-04hr  (12641) embryo 04-06hr  (12910) embryo 06-08hr  (11300) embryo 08-10hr  (8554) embryo 10-12hr  (7905) embryo 12-14hr  (3832) embryo 14-16hr  (3957) embryo 16-18hr  (2388) embryo 18-20hr  (1749) embryo 20-22hr  (1667) embryo 22-24hr  (1506) larva L1  (2128) larva L2  (2055) larva L3 12hr old  (1508) larva L3 puffstage 1-2  (1243) larva L3 puffstage 3-6  (1830) larva L3 puffstage 7-9  (2021) white prepupae new  (2081) white prepupae 12hr  (2468) white prepupae 24hr  (3268) pupae 2d postWPP  (2045) pupae 3d postWPP  (1219) pupae 4d postWPP  (998) adult male 01day  (1099) adult male 05day  (1686) adult male 30day  (1335) adult female 01day  (2360) adult female 05day  (3483) adult female 30day  (3962) Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (8234) embryo 02-04hr  (12641) embryo 04-06hr  (12910) embryo 06-08hr  (11300) embryo 08-10hr  (8554) embryo 10-12hr  (7905) embryo 12-14hr  (3832) embryo 14-16hr  (3957) embryo 16-18hr  (2388) embryo 18-20hr  (1749) embryo 20-22hr  (1667) embryo 22-24hr  1506 larva L1  (2128) larva L2  (2055) larva L3 12hr old  1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6  (1830) larva L3 puffstage 7-9  (2021) white prepupae new  (2081) white prepupae 12hr  (2468) white prepupae 24hr  (3268) pupae 2d postWPP  (2045) pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day  (1686) adult male 30day    1335 adult female 01day  (2360) adult female 05day  (3483) adult female 30day  (3962) Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    8234 embryo 02-04hr  (12641) embryo 04-06hr  (12910) embryo 06-08hr  (11300) embryo 08-10hr    8554 embryo 10-12hr    7905 embryo 12-14hr    3832 embryo 14-16hr    3957 embryo 16-18hr    2388 embryo 18-20hr    1749 embryo 20-22hr    1667 embryo 22-24hr    1506 larva L1    2128 larva L2    2055 larva L3 12hr old    1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6    1830 larva L3 puffstage 7-9    2021 white prepupae new    2081 white prepupae 12hr    2468 white prepupae 24hr    3268 pupae 2d postWPP    2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day    1686 adult male 30day    1335 adult female 01day    2360 adult female 05day    3483 adult female 30day    3962 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    8234 embryo 02-04hr    12641 embryo 04-06hr    12910 embryo 06-08hr    11300 embryo 08-10hr    8554 embryo 10-12hr    7905 embryo 12-14hr    3832 embryo 14-16hr    3957 embryo 16-18hr    2388 embryo 18-20hr    1749 embryo 20-22hr    1667 embryo 22-24hr    1506 larva L1    2128 larva L2    2055 larva L3 12hr old    1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6    1830 larva L3 puffstage 7-9    2021 white prepupae new    2081 white prepupae 12hr    2468 white prepupae 24hr    3268 pupae 2d postWPP    2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day    1686 adult male 30day    1335 adult female 01day    2360 adult female 05day    3483 adult female 30day    3962 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0037707 expression level Developmental Stage   Expression Level embryo 00-02hr    8234 embryo 02-04hr    12641 embryo 04-06hr    12910 embryo 06-08hr    11300 embryo 08-10hr    8554 embryo 10-12hr    7905 embryo 12-14hr    3832 embryo 14-16hr    3957 embryo 16-18hr    2388 embryo 18-20hr    1749 embryo 20-22hr    1667 embryo 22-24hr    1506 larva L1    2128 larva L2    2055 larva L3 12hr old    1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6    1830 larva L3 puffstage 7-9    2021 white prepupae new    2081 white prepupae 12hr    2468 white prepupae 24hr    3268 pupae 2d postWPP    2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day    1686 adult male 30day    1335 adult female 01day    2360 adult female 05day    3483 adult female 30day    3962 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (8234) embryo 02-04hr  (12641) embryo 04-06hr  (12910) embryo 06-08hr  (11300) embryo 08-10hr  (8554) embryo 10-12hr  (7905) embryo 12-14hr  (3832) embryo 14-16hr  (3957) embryo 16-18hr  (2388) embryo 18-20hr  (1749) embryo 20-22hr  (1667) embryo 22-24hr  (1506) larva L1  (2128) larva L2  (2055) larva L3 12hr old  (1508) larva L3 puffstage 1-2  (1243) larva L3 puffstage 3-6  (1830) larva L3 puffstage 7-9  (2021) white prepupae new  (2081) white prepupae 12hr  (2468) white prepupae 24hr  (3268) pupae 2d postWPP  (2045) pupae 3d postWPP  (1219) pupae 4d postWPP  (998) adult male 01day  (1099) adult male 05day  (1686) adult male 30day  (1335) adult female 01day  (2360) adult female 05day  (3483) adult female 30day  (3962) Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (8234) embryo 02-04hr  (12641) embryo 04-06hr  (12910) embryo 06-08hr  (11300) embryo 08-10hr  (8554) embryo 10-12hr  (7905) embryo 12-14hr  (3832) embryo 14-16hr  (3957) embryo 16-18hr  2388 embryo 18-20hr  1749 embryo 20-22hr  1667 embryo 22-24hr  1506 larva L1  2128 larva L2  2055 larva L3 12hr old  1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6  1830 larva L3 puffstage 7-9  2021 white prepupae new  2081 white prepupae 12hr  2468 white prepupae 24hr  (3268) pupae 2d postWPP  2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day  1686 adult male 30day    1335 adult female 01day  2360 adult female 05day  (3483) adult female 30day  (3962) Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    8234 embryo 02-04hr  12641 embryo 04-06hr  12910 embryo 06-08hr  11300 embryo 08-10hr    8554 embryo 10-12hr    7905 embryo 12-14hr    3832 embryo 14-16hr    3957 embryo 16-18hr    2388 embryo 18-20hr    1749 embryo 20-22hr    1667 embryo 22-24hr    1506 larva L1    2128 larva L2    2055 larva L3 12hr old    1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6    1830 larva L3 puffstage 7-9    2021 white prepupae new    2081 white prepupae 12hr    2468 white prepupae 24hr    3268 pupae 2d postWPP    2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day    1686 adult male 30day    1335 adult female 01day    2360 adult female 05day    3483 adult female 30day    3962 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    8234 embryo 02-04hr    12641 embryo 04-06hr    12910 embryo 06-08hr    11300 embryo 08-10hr    8554 embryo 10-12hr    7905 embryo 12-14hr    3832 embryo 14-16hr    3957 embryo 16-18hr    2388 embryo 18-20hr    1749 embryo 20-22hr    1667 embryo 22-24hr    1506 larva L1    2128 larva L2    2055 larva L3 12hr old    1508 larva L3 puffstage 1-2    1243 larva L3 puffstage 3-6    1830 larva L3 puffstage 7-9    2021 white prepupae new    2081 white prepupae 12hr    2468 white prepupae 24hr    3268 pupae 2d postWPP    2045 pupae 3d postWPP    1219 pupae 4d postWPP    998 adult male 01day    1099 adult male 05day    1686 adult male 30day    1335 adult female 01day    2360 adult female 05day    3483 adult female 30day    3962 Expression Level Scale  None   Extremely low   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     FlyAtlas Anatomical Expression Data for FBgn0037707    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0037707 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system, adult ovary. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult central nervous system, adult crop, larval hindgut, larval fat body, larval/adult salivary gland, larval trachea, adult male reproductive system, larval/adult carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (1000 - 25000) Linear, scaled to maximum FBgn0037707 expression level Tissue   Expression Level Larval Central Nervous System    626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary    535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  (626.025) Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary  535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary    535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary    535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0037707 expression level Tissue   Expression Level Larval Central Nervous System    626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary    535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary  535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary    535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    626.025 Larval Midgut    67.1 Larval Hindgut    135.6 Larval Malpighian Tubules    82.7 Larval Fat Body    102.8 Larval Salivary Gland    270.1 Larval Trachea    244.5 Larval Carcass    172.075 Adult Head    114.3 Adult Eye    85.725 Adult Brain    229.8 Adult Thoracic-Abdominal Ganglion    216.3 Adult Crop    113.3 Adult Midgut    87.6 Adult Hindgut    99 Adult Malpighian Tubules    91.2 Adult Fat Body    90 Adult Salivary Gland    102.5 Adult Heart    73.275 Adult VirginFemale Spermatheca    69.4 Adult InseminatedFemale Spermatheca    76 Adult Ovary    535.8 Adult Testis    299.6 Adult Male Accessory Gland    178.1 Adult Carcass    112.9 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    114.3   NA  Eye    85.725   NA  Brain    229.8   626.025  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    216.3   NA  Crop    113.3   67.1  Midgut    87.6   135.6  Hindgut    99   82.7  Malpighian Tubules    91.2   102.8  Fat Body    90   270.1  Salivary Gland    102.5   NA  Heart    73.275   244.5  Trachea    NA   NA  VirginFemale Spermatheca    69.4   NA  InseminatedFemale Spermatheca    76   NA  Ovary    535.8   NA  Testis    299.6   NA  Male Accessory Gland    178.1   172.075  Carcass    112.9 modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_17
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0037707 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG16788-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for RnpS1 Stages(s) 1-3 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Other Phenotypes Allele neuroanatomy defective | larval stage, with Scer\GAL4elav-C155 RnpS1EP1082 Phenotype manifest in Allele anterior fascicle & synapse, with Scer\GAL4elav-C155 RnpS1EP1082 anterior fascicle & synapse | supernumerary, with Scer\GAL4elav-C155 RnpS1EP1082 intersegmental nerve, with Scer\GAL4elav-C155 RnpS1EP1082
Classical Alleles ( 6 )
For All Classical Alleles Show
Allele of RnpS1 Class Mutagen Stocks Known lesion RnpS1c02910 piggyBac transposase 1 -- RnpS1CPTI004189 piggyBac transposase 0 Yes RnpS1CPTI004245 piggyBac transposase 0 Yes RnpS1CPTI004270 piggyBac transposase 0 Yes RnpS1CPTI004278 piggyBac transposase 0 Yes RnpS1EP1082 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of RnpS1 Class Mutagen Stocks Known lesion RnpS1GD9206 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes RnpS1KK101060 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes RnpS1dsRNA.cGa in vitro construct - RNAi 0 Yes
Aneuploid Aberrations
Disrupted in	Df(3R)Exel6153 (Ryder, 2004.4.26) Df(3R)Exel6264 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD9206} NA P{KK101060} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}RnpS1EP1082 NA P{GSV1}EP-643EP-643 NA miscellaneous insertions PBac{810.P.FSVS-2}RnpS1CPTI004189 NA PBac{810.P.FSVS-2}RnpS1CPTI004245 NA PBac{810.P.FSVS-2}RnpS1CPTI004270 NA PBac{810.P.FSVS-2}RnpS1CPTI004278 NA PBac{PB}RnpS1c02910 NA
Gene Ontology: Function, Process & Cellular Component ( 4 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 4 terms )
Molecular Function
CV term Evidence References
mRNA binding inferred from sequence or structural similarity (Lasko, 2000) non-traceable author statement (Izaurralde, 2002.4.30) nucleic acid binding inferred from electronic annotation with InterPro:IPR000504 (FlyBase Curators et al., 2004-) nucleotide binding inferred from electronic annotation with InterPro:IPR012677 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay non-traceable author statement (Izaurralde, 2002.4.30)
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
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions RnpS1 allele Gene References RnpS1EP1082 pnr (Pena-Rangel et al., 2002)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 66306 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0037707 DroID - A comprehensive database of gene and protein interactions. • FBgn0037707 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 41147
Orthologs
Genome-wide drosophilid orthologs	Dana\GF18475 Dere\GG16863 Dgri\GH18277 Dmoj\GI24086 Dper\GL22325 Dpse\GA14150 Dsec\GM23813 Dsim\GD17555 Dvir\GJ10904 Dwil\GK11259 Dyak\GE25959
Curated drosophilid orthologs	Dpse\GA14150
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AGAP009570-PA Anopheles gambiae (mosquito) XP_624099.2 Apis mellifera (honey bee) XP_001945375.1 Acyrthosiphon pisum (pea aphid) At1g16610.1 Arabidopsis thaliana (wall cress) 126915 Branchiostoma floridae (lancelet) XP_001902324.1 Brugia malayi (roundworm nematode) ENSBTAP00000013151 Bos taurus (bovine) CN30664 Caenorhabditis brenneri (small nematode) CBP37187 Caenorhabditis briggsae (nematode) CE29981 Caenorhabditis elegans (worm) ENSCAFP00000028673 Canis familiaris (dog) JA15810 Caenorhabditis japonica (nematode) cn03118 Cryptococcus neoformans (yeast-like fungus) ENSCPOP00000017386 Cavia porcellus (guinea pig) RP41805 Caenorhabditis remanei (nematode) RP42857 Caenorhabditis remanei (nematode) ENSCSAVP00000002175 Ciona savignyi (sedentary tunicate) DDB0233749 Dictyostelium discoideum (amoeba) 315633 Daphnia pulex (daphnia) ENSDARP00000016052 Danio rerio (zebra fish) ENSECAP00000020729 Equus caballus (horse) ENSGACP00000014885 Gymnopilus aculeatus (mushroom) ENSGALP00000015093 Gallus gallus (chicken) 100903 Hypsipyla robusta (cedar shoot borer) ENSP00000315859 Homo sapiens (human) 156651 Lottia gigantea (owl limpet) ENSMODP00000019828 Monodelphis domestica (gray opossum) ENSMMUP00000025282 Macaca mulatta (rhesus monkey) ENSMUSP00000057332 Mus musculus (house mouse) ENSORLP00000010076 Oryzias latipes (japanese killifish) LOC_Os01g72890.1 Oryza sativa (asian rice) PP07095 Pristionchus pacificus (nematode) 105411 Physcomitrella patens (moss) 166555 Physcomitrella patens (moss) 823076 Populus trichocarpa (black cottonwood) ENSPTRP00000013064 Pan troglodytes (chimpanzee) ENSRNOP00000046403 Rattus norvegicus (norway rat) 4977059 Sorghum bicolor (sorghum) Smp_070200 Schistosoma mansoni (trematode parasite) XP_001179822.1 Strongylocentrotus purpuratus (purple sea urchin) XP_975044.2 Tribolium castaneum (red flour beetle) ENSTNIP00000012640 Tetraodon nigroviridis (green spotted pufferfish) ENSTRUP00000021579 Takifugu rubripes (pufferfish Takifugu) ENSXETP00000052845 Xenopus tropicalis (frog) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB15295 LH16610 ISCW009998 FBgn0243006 FBgn0213270 FBgn0198172 FBgn0178678 JGI_V11_315633 FBgn0074179 FBgn0159917 FBgn0146809 FBgn0125745 FBgn0109091 FBgn0095493 CPIJ001780 BGIBMGA005438 ACYPI000644 GB12761 AGAP009570 GLEAN_05720
Stocks & Reagents
Stocks Listed in FlyBase ( 3 )
Harvard	- PBac{PB}RnpS1c02910
VDRC	v107953 P{KK101060}VIE-260B v51851 w1118; P{GD9206}v51851
Genomic Clones ( 1 )
	BACR19N07 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 22 )
	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	LD23870
Other clones	DPiM_LD23870
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	LD23882 LD26185 LD31801 LD35117 LD35921 LD36648 LD41527 LD46757 RE04757 RE06821 RE22395 RE38749 RH04190 RH43833
Other clones	bs01h10 Dmel_dig_010356_0618_2761 EC053786 EK186434 EK190961 EK251315
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0037707 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 41147
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: RnpS1 CG16788 (FlyBase, 1996-)
Source for database merge of
Additional comments	Source for identity of RnpS1 CG16788 was sequence comparison (date:021108). (FlyBase, 1996-)
Other Comments
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_141646 RefSeq (Proteins) • NP_649903 DDBJ / EMBL / GenBank • AA820315 AA942134 AAF54396 AAM50787 AI455391 AI944481 AJ459409 AQ025170 AY118927 CAD30680 CZ468313 Entrez Gene - A searchable database of RefSeq genes. • 41147 UniProtKB/TrEMBL • Q9VHC0
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • RNA recognition motif domain (IPR000504) Nucleotide-binding, alpha-beta plait (IPR012677)
Linkouts
	BioGRID - A database of protein and genetic interactions • 66306 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0037707 DroID - A comprehensive database of gene and protein interactions. • FBgn0037707 DRSC - Results from RNAi screens. • FBgn0037707 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0037707 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG16788-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0037707 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 41147 InParanoid A subset of ortholog calls from InParanoid. • AGAP009570-PA Anopheles gambiae (mosquito) XP_624099.2 Apis mellifera (honey bee) XP_001945375.1 Acyrthosiphon pisum (pea aphid) At1g16610.1 Arabidopsis thaliana (wall cress) 126915 Branchiostoma floridae (lancelet) XP_001902324.1 Brugia malayi (roundworm nematode) ENSBTAP00000013151 Bos taurus (bovine) CN30664 Caenorhabditis brenneri (small nematode) CBP37187 Caenorhabditis briggsae (nematode) CE29981 Caenorhabditis elegans (worm) ENSCAFP00000028673 Canis familiaris (dog) JA15810 Caenorhabditis japonica (nematode) cn03118 Cryptococcus neoformans (yeast-like fungus) ENSCPOP00000017386 Cavia porcellus (guinea pig) RP41805 Caenorhabditis remanei (nematode) RP42857 Caenorhabditis remanei (nematode) ENSCSAVP00000002175 Ciona savignyi (sedentary tunicate) DDB0233749 Dictyostelium discoideum (amoeba) 315633 Daphnia pulex (daphnia) ENSDARP00000016052 Danio rerio (zebra fish) ENSECAP00000020729 Equus caballus (horse) ENSGACP00000014885 Gymnopilus aculeatus (mushroom) ENSGALP00000015093 Gallus gallus (chicken) 100903 Hypsipyla robusta (cedar shoot borer) ENSP00000315859 Homo sapiens (human) 156651 Lottia gigantea (owl limpet) ENSMODP00000019828 Monodelphis domestica (gray opossum) ENSMMUP00000025282 Macaca mulatta (rhesus monkey) ENSMUSP00000057332 Mus musculus (house mouse) ENSORLP00000010076 Oryzias latipes (japanese killifish) LOC_Os01g72890.1 Oryza sativa (asian rice) PP07095 Pristionchus pacificus (nematode) 105411 Physcomitrella patens (moss) 166555 Physcomitrella patens (moss) 823076 Populus trichocarpa (black cottonwood) ENSPTRP00000013064 Pan troglodytes (chimpanzee) ENSRNOP00000046403 Rattus norvegicus (norway rat) 4977059 Sorghum bicolor (sorghum) Smp_070200 Schistosoma mansoni (trematode parasite) XP_001179822.1 Strongylocentrotus purpuratus (purple sea urchin) XP_975044.2 Tribolium castaneum (red flour beetle) ENSTNIP00000012640 Tetraodon nigroviridis (green spotted pufferfish) ENSTRUP00000021579 Takifugu rubripes (pufferfish Takifugu) ENSXETP00000052845 Xenopus tropicalis (frog) InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 41147 modMine - Data generated by the modENCODE project. • FBgn0037707 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB15295 LH16610 ISCW009998 FBgn0243006 FBgn0213270 FBgn0198172 FBgn0178678 JGI_V11_315633 FBgn0074179 FBgn0159917 FBgn0146809 FBgn0125745 FBgn0109091 FBgn0095493 CPIJ001780 BGIBMGA005438 ACYPI000644 GB12761 AGAP009570 GLEAN_05720
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG16788 (Gatfield and Izaurralde, 2002, Pena-Rangel et al., 2002, Molnar et al., 2006, Keleman et al., 2009.8.5) cg16788 (Lasko, 2000) DEK (Gatfield and Izaurralde, 2002) RnpS1 (Mack et al., 2006, Molnar et al., 2006, Roignant and Treisman, 2010, Ashton-Beaucage et al., 2010)
Name Synonym	RNA-binding protein S1   RRM-domain protein (Kraut et al., 2001, Kraut et al., 2001)
Secondary FlyBase IDs
References ( 28 )
Generate a list of	All references relating to this gene ( 28 )
List References by type	Research paper  ( 10 ) Supplementary material  ( 3 ) Review  ( 1 ) Personal communication to FlyBase  ( 7 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 1 ) Computer file  ( 3 ) Automatic genome annotation  ( 1 )
Recent research papers ( 3 )
	Ashton-Beaucage et al., 2010, Cell 143(2): 251--262 The exon junction complex controls the splicing of MAPK and other long intron-containing transcripts in Drosophila. [FBrf0212064] Blanco et al., 2010, BMC Dev. Biol. 10: 94 Gene expression following induction of regeneration in Drosophila wing imaginal discs. Expression profile of regenerating wing discs. [FBrf0211812] Roignant and Treisman, 2010, Cell 143(2): 238--250 Exon Junction Complex Subunits Are Required to Splice Drosophila MAP Kinase, a Large Heterochromatic Gene. [FBrf0212083] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...