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Gene Dmel\CG1646

General Information
Symbol	Dmel\CG1646	Species	D. melanogaster
Name		Annotation symbol	CG1646
Feature type	protein_coding_gene	FlyBase ID	FBgn0039600
Gene Model Status	Current	Stock availability	4 publicly available
Also Known As	Prp39
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	98E5-98E5	Sequence location	3R:24,637,826..24,643,076 [+]
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	This gene is referred to in FlyBase by the symbol Dmel\CG1646 (FBgn0039600). It is a protein_coding_gene from Drosophila melanogaster. An electronic pipeline based on InterPro domains suggests that it has the molecular function: heat shock protein binding. There is experimental evidence that it is involved in the biological process: regulation of alternative nuclear mRNA splicing, via spliceosome. 5 alleles are reported. No phenotypic data is available. It has 6 annotated transcripts and 6 annotated polypeptides. Protein features are: Heat shock protein DnaJ, N-terminal; RNA-processing protein, HAT helix; Tetratricopeptide-like helical. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval/adult midgut, larval/adult hindgut, larval/adult Malpighian tubules, adult fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, adult male reproductive system, larval/adult carcass. Comments on Affy2 ProbeSet: ProbeSet 1635187_s_at completely aligns to an exonic region common to each of the 6 FlyBase-annotated transcript isoforms of CG1646. Gene sequence location is 3R:24637826..24643076.
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.
FB2011_10
FB2012_01	Sequence features BKN20089 HFA15133 BKN46593
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 98E5-98E5   Limits computationally determined from genome sequence between P{PZ}l(3)0648706487 and P{EP}EP3390EP3390
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\CG1646 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) CG1646-RA FBtr0085323  NM_143377   3550   1009 CG1646-RB FBtr0085322  NM_170377   3403   1066 CG1646-RC FBtr0085325  NM_176576   3560   1009 CG1646-RD FBtr0085324  NM_176577   3283   1026 CG1646-RE FBtr0113299  NM_001104487   3582   1009 CG1646-RH FBtr0113301  NM_001104488   4602   501
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 CG1646-PA   FBpp0084692   114.3   1009   4.81     NP_651634   AAF56816 CG1646-PB   FBpp0084691   120.5   1066   4.87     NP_733256   AAN14302 CG1646-PC   FBpp0084694   114.3   1009   4.81     NP_788753   AAO41607 CG1646-PD   FBpp0084693   116.3   1026   4.96     NP_788754   AAO41608 CG1646-PE   FBpp0112211   114.3   1009   4.81     NP_001097957   ABW08793 CG1646-PH   FBpp0112213   56.3   501   4.42     NP_001097958   ABW08794
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • RNA-processing protein, HAT helix (IPR003107) Tetratricopeptide-like helical (IPR011990) Heat shock protein DnaJ, N-terminal (IPR001623)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA201919   AA390411   AA439171   AA695390   AA696085   AA942301   AE014297 AAF56816   AE014297 AAN14302   AE014297 AAO41607   AE014297 AAO41608   AE014297 ABW08793   AE014297 ABW08794   AI108480   AI108928   AI296561   AI519820   AW942843   AY051737 AAK93161   BF489639   BF501207   BG633649   BI171486   BI215096   BI216752   BI227742   BI232620   BI352551   BI364530   BI367469   BI368911   BI371705   BI484339   BI484363   BI570473   BI578513   BI579814   BI590078   BI590305   BI590347   BI635882   BI636262   BP551287   BP551288   BP554806   BP554807   BT099749   CO179612   CO180746   CO185412   CO188489   CO262460   CO271897   CO272664   CO272862   CO275269   CO276646   CO281090   CO281210   CO281533   CO282113   CO293627   CO298958   CO299109   CO313198   CO329263   CO332984   CO339356   CO339644   CO343510   EC055434   EC071422   EC071872   EC083090   EC084608   EC084713   EC084986   EC088041   EC194471   EC206240   EC206735   EC209247   EC220499   EC224316   EC233130   EC239803   EC241852   EC244036   EC250641   EC251760   EC254946   EC255507   GH946585   GH948124   GH949939   GH950043   GH952278   GH955542   GH956083   GH962032   GH963030   GH968324   GH971393   GH973982   GH978431   GH978782   GH983505
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q7KRW8
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
expression microarray Stage Tissue/Position (including subcellular localization) Reference adult stage | female     (Arbeitman et al., 2004)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
Additional Descriptive Data
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 FBgn0039600    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0039600 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 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 FBgn0039600 expression level Developmental Stage   Expression Level embryo 00-02hr    1730 embryo 02-04hr    5098 embryo 04-06hr    8233 embryo 06-08hr    5212 embryo 08-10hr    3960 embryo 10-12hr    2736 embryo 12-14hr    2386 embryo 14-16hr    1968 embryo 16-18hr    1678 embryo 18-20hr    1305 embryo 20-22hr    2056 embryo 22-24hr    1847 larva L1    1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6    1525 larva L3 puffstage 7-9    1609 white prepupae new    1606 white prepupae 12hr    1870 white prepupae 24hr    2575 pupae 2d postWPP    1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day    1427 adult female 01day    1422 adult female 05day    1603 adult female 30day    1600 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (1730) embryo 02-04hr  (5098) embryo 04-06hr  (8233) embryo 06-08hr  (5212) embryo 08-10hr  (3960) embryo 10-12hr  (2736) embryo 12-14hr  (2386) embryo 14-16hr  (1968) embryo 16-18hr  (1678) embryo 18-20hr  (1305) embryo 20-22hr  (2056) embryo 22-24hr  (1847) larva L1  (1625) larva L2  (1250) larva L3 12hr old  (1053) larva L3 puffstage 1-2  (1037) larva L3 puffstage 3-6  (1525) larva L3 puffstage 7-9  (1609) white prepupae new  (1606) white prepupae 12hr  (1870) white prepupae 24hr  (2575) pupae 2d postWPP  (1922) pupae 3d postWPP  (1138) pupae 4d postWPP  (867) adult male 01day  (1056) adult male 05day  (1363) adult male 30day  (1427) adult female 01day  (1422) adult female 05day  (1603) adult female 30day  (1600) Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (1730) embryo 02-04hr  (5098) embryo 04-06hr  (8233) embryo 06-08hr  (5212) embryo 08-10hr  (3960) embryo 10-12hr  (2736) embryo 12-14hr  (2386) embryo 14-16hr  (1968) embryo 16-18hr  (1678) embryo 18-20hr    1305 embryo 20-22hr  (2056) embryo 22-24hr  (1847) larva L1  (1625) larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6  (1525) larva L3 puffstage 7-9  (1609) white prepupae new  (1606) white prepupae 12hr  (1870) white prepupae 24hr  (2575) pupae 2d postWPP  (1922) pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day  1427 adult female 01day  1422 adult female 05day  (1603) adult female 30day  (1600) Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    1730 embryo 02-04hr    5098 embryo 04-06hr    8233 embryo 06-08hr    5212 embryo 08-10hr    3960 embryo 10-12hr    2736 embryo 12-14hr    2386 embryo 14-16hr    1968 embryo 16-18hr    1678 embryo 18-20hr    1305 embryo 20-22hr    2056 embryo 22-24hr    1847 larva L1    1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6    1525 larva L3 puffstage 7-9    1609 white prepupae new    1606 white prepupae 12hr    1870 white prepupae 24hr    2575 pupae 2d postWPP    1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day    1427 adult female 01day    1422 adult female 05day    1603 adult female 30day    1600 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    1730 embryo 02-04hr    5098 embryo 04-06hr    8233 embryo 06-08hr    5212 embryo 08-10hr    3960 embryo 10-12hr    2736 embryo 12-14hr    2386 embryo 14-16hr    1968 embryo 16-18hr    1678 embryo 18-20hr    1305 embryo 20-22hr    2056 embryo 22-24hr    1847 larva L1    1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6    1525 larva L3 puffstage 7-9    1609 white prepupae new    1606 white prepupae 12hr    1870 white prepupae 24hr    2575 pupae 2d postWPP    1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day    1427 adult female 01day    1422 adult female 05day    1603 adult female 30day    1600 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0039600 expression level Developmental Stage   Expression Level embryo 00-02hr    1730 embryo 02-04hr    5098 embryo 04-06hr    8233 embryo 06-08hr    5212 embryo 08-10hr    3960 embryo 10-12hr    2736 embryo 12-14hr    2386 embryo 14-16hr    1968 embryo 16-18hr    1678 embryo 18-20hr    1305 embryo 20-22hr    2056 embryo 22-24hr    1847 larva L1    1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6    1525 larva L3 puffstage 7-9    1609 white prepupae new    1606 white prepupae 12hr    1870 white prepupae 24hr    2575 pupae 2d postWPP    1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day    1427 adult female 01day    1422 adult female 05day    1603 adult female 30day    1600 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  (1730) embryo 02-04hr  (5098) embryo 04-06hr  (8233) embryo 06-08hr  (5212) embryo 08-10hr  (3960) embryo 10-12hr  (2736) embryo 12-14hr  (2386) embryo 14-16hr  (1968) embryo 16-18hr  (1678) embryo 18-20hr  (1305) embryo 20-22hr  (2056) embryo 22-24hr  (1847) larva L1  (1625) larva L2  (1250) larva L3 12hr old  (1053) larva L3 puffstage 1-2  (1037) larva L3 puffstage 3-6  (1525) larva L3 puffstage 7-9  (1609) white prepupae new  (1606) white prepupae 12hr  (1870) white prepupae 24hr  (2575) pupae 2d postWPP  (1922) pupae 3d postWPP  (1138) pupae 4d postWPP  (867) adult male 01day  (1056) adult male 05day  (1363) adult male 30day  (1427) adult female 01day  (1422) adult female 05day  (1603) adult female 30day  (1600) Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  1730 embryo 02-04hr  (5098) embryo 04-06hr  (8233) embryo 06-08hr  (5212) embryo 08-10hr  (3960) embryo 10-12hr  (2736) embryo 12-14hr  2386 embryo 14-16hr  1968 embryo 16-18hr  1678 embryo 18-20hr    1305 embryo 20-22hr  2056 embryo 22-24hr  1847 larva L1  1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6  1525 larva L3 puffstage 7-9  1609 white prepupae new  1606 white prepupae 12hr  1870 white prepupae 24hr  (2575) pupae 2d postWPP  1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day  1427 adult female 01day  1422 adult female 05day  1603 adult female 30day  1600 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    1730 embryo 02-04hr    5098 embryo 04-06hr    8233 embryo 06-08hr    5212 embryo 08-10hr    3960 embryo 10-12hr    2736 embryo 12-14hr    2386 embryo 14-16hr    1968 embryo 16-18hr    1678 embryo 18-20hr    1305 embryo 20-22hr    2056 embryo 22-24hr    1847 larva L1    1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6    1525 larva L3 puffstage 7-9    1609 white prepupae new    1606 white prepupae 12hr    1870 white prepupae 24hr    2575 pupae 2d postWPP    1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day    1427 adult female 01day    1422 adult female 05day    1603 adult female 30day    1600 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    1730 embryo 02-04hr    5098 embryo 04-06hr    8233 embryo 06-08hr    5212 embryo 08-10hr    3960 embryo 10-12hr    2736 embryo 12-14hr    2386 embryo 14-16hr    1968 embryo 16-18hr    1678 embryo 18-20hr    1305 embryo 20-22hr    2056 embryo 22-24hr    1847 larva L1    1625 larva L2    1250 larva L3 12hr old    1053 larva L3 puffstage 1-2    1037 larva L3 puffstage 3-6    1525 larva L3 puffstage 7-9    1609 white prepupae new    1606 white prepupae 12hr    1870 white prepupae 24hr    2575 pupae 2d postWPP    1922 pupae 3d postWPP    1138 pupae 4d postWPP    867 adult male 01day    1056 adult male 05day    1363 adult male 30day    1427 adult female 01day    1422 adult female 05day    1603 adult female 30day    1600 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 FBgn0039600    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0039600 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Nearly all larval and adult tissues/organs expressed at moderate levels. Expression at moderate levels in the following post-embryonic organs or tissues: adult head, adult eye, larval/adult central nervous system, adult crop, larval/adult midgut, larval/adult hindgut, larval/adult Malpighian tubules, adult fat body, larval/adult salivary gland, larval trachea, adult female reproductive system, 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 FBgn0039600 expression level Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0039600 expression level Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    453.375 Larval Midgut    157.6 Larval Hindgut    182.2 Larval Malpighian Tubules    142.5 Larval Fat Body    99 Larval Salivary Gland    409.3 Larval Trachea    228.525 Larval Carcass    202.425 Adult Head    148.7 Adult Eye    152.55 Adult Brain    482.2 Adult Thoracic-Abdominal Ganglion    353.5 Adult Crop    146.7 Adult Midgut    150.7 Adult Hindgut    174 Adult Malpighian Tubules    167.4 Adult Fat Body    108.1 Adult Salivary Gland    207.4 Adult Heart    99 Adult VirginFemale Spermatheca    118.5 Adult InseminatedFemale Spermatheca    123.3 Adult Ovary    197.9 Adult Testis    156.2 Adult Male Accessory Gland    417.7 Adult Carcass    111.4 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    148.7   NA  Eye    152.55   NA  Brain    482.2   453.375  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    353.5   NA  Crop    146.7   157.6  Midgut    150.7   182.2  Hindgut    174   142.5  Malpighian Tubules    167.4   99  Fat Body    108.1   409.3  Salivary Gland    207.4   NA  Heart    99   228.525  Trachea    NA   NA  VirginFemale Spermatheca    118.5   NA  InseminatedFemale Spermatheca    123.3   NA  Ovary    197.9   NA  Testis    156.2   NA  Male Accessory Gland    417.7   202.425  Carcass    111.4 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_31
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0039600 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG1646-RB
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 CG1646GD9175 Phenotype manifest in Allele
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of CG1646 Class Mutagen Stocks Known lesion CG1646G6727 P-element activity 1 -- CG1646317 0 -- CG1646407 0 --
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of CG1646 Class Mutagen Stocks Known lesion CG1646GD9175 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes CG1646KK105753 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Disrupted in	Df(3R)Exel6210 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD9175} NA P{KK105753} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{}CG1646317 NA P{}CG1646407 NA insertion of mobile activating element P{EP}CG1646G6727 NA
Gene Ontology: Function, Process & Cellular Component ( 5 unique terms )
Terms Based on Experimental Evidence ( 1 term )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
regulation of alternative nuclear mRNA splicing, via spliceosome inferred from mutant phenotype (Park et al., 2004, Katzenberger et al., 2009)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 4 terms )
Molecular Function
CV term Evidence References
heat shock protein binding inferred from electronic annotation with InterPro:IPR001623 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
nuclear mRNA splicing, via spliceosome inferred from sequence or structural similarity with Saccharomyces PRP39 AND inferred from sequence or structural similarity with NCBI:BAA92024 (Mount and Salz, 2000)
Cellular Component
CV term Evidence References
nucleus inferred by curator from GO:0000381 (Park et al., 2004) U1 snRNP inferred from sequence or structural similarity with Saccharomyces PRP39 AND inferred from sequence or structural similarity with NCBI:BAA92024 (Mount and Salz, 2000)
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 CG1646 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 68275 DroID - A comprehensive database of gene and protein interactions. • FBgn0039600 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 43399
Orthologs
Genome-wide drosophilid orthologs	Dana\GF18589 Dere\GG11615 Dgri\GH22424 Dmoj\GI22241 Dper\GL13803 Dpse\GA26805 Dsec\GM12738 Dsim\GD21382 Dvir\GJ23047 Dwil\GK12105 Dyak\GE23802
Curated drosophilid orthologs	Dpse\GA14070
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AAEL013888-PA Aedes aegypti (mosquito) XP_392380.2 Apis mellifera (honey bee) XP_001951289.1 Acyrthosiphon pisum (pea aphid) At1g04080.1 Arabidopsis thaliana (wall cress) 117858 Branchiostoma floridae (lancelet) 117868 Branchiostoma floridae (lancelet) BGIBMGA004939-PA Bombyx mori (silk worm) ENSBTAP00000003373 Bos taurus (bovine) CN05796 Caenorhabditis brenneri (small nematode) CBP16513 Caenorhabditis briggsae (nematode) CE28000 Caenorhabditis elegans (worm) ENSCAFP00000020711 Canis familiaris (dog) JA06971 Caenorhabditis japonica (nematode) CPIJ005563 Culex pipens (mosquito) ENSCPOP00000001304 Cavia porcellus (guinea pig) RP48551 Caenorhabditis remanei (nematode) 180947 Capitella spl (polychaete worm) DDB0233547 Dictyostelium discoideum (amoeba) ENSDARP00000061671 Danio rerio (zebra fish) ENSECAP00000013137 Equus caballus (horse) ENSGACP00000016885 Gymnopilus aculeatus (mushroom) ENSGALP00000020349 Gallus gallus (chicken) ENSP00000348010 Homo sapiens (human) 229414 Lottia gigantea (owl limpet) ENSMODP00000009177 Monodelphis domestica (gray opossum) ENSMMUP00000014236 Macaca mulatta (rhesus monkey) ENSMUSP00000112953 Mus musculus (house mouse) 11203 Nematostella vectensis (starlet anemone) XP_001607328.1 Nasonia vitripennis (wasp) ENSOANP00000022075 Ornithorynchus anatinus (platypus) ENSORLP00000003420 Oryzias latipes (japanese killifish) LOC_Os03g11200.1 Oryza sativa (asian rice) PHUM001233-PA Pediculus humanus (human body louse) 119915 Physcomitrella patens (moss) ENSPPYP00000006566 Pongo pygmaeus (orangutan) 74778 Phytophthora ramorum (sudden oak death pathogen) 155731 Phytophthora sojae (root rot pathogen) 730568 Populus trichocarpa (black cottonwood) ENSPTRP00000044474 Pan troglodytes (chimpanzee) 4871941 Sorghum bicolor (sorghum) Smp_170570 Schistosoma mansoni (trematode parasite) 59779 Trichoplax adhaerens (metazoa) XP_970329.1 Tribolium castaneum (red flour beetle) ENSTNIP00000013912 Tetraodon nigroviridis (green spotted pufferfish) ENSTRUP00000029629 Takifugu rubripes (pufferfish Takifugu) ENSXETP00000006658 Xenopus tropicalis (frog) YALI0D16225g Yarrowia lipolytica (nonconventional yeast) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB17763 NV12851 LH18560 ISCW015529 FBgn0240957 FBgn0214116 FBgn0210149 FBgn0192818 FBgn0167674 JGI_V11_228312 FBgn0248178 FBgn0151408 FBgn0144969 FBgn0129882 FBgn0103912 FBgn0095607 CPIJ005563 BGIBMGA004939 ACYPI004573 ACYPI003809 AAEL013888 PHUM226800 PHUM226810 GLEAN_09607
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Bloomington	30173 w1118; P{EP}CG1646G6727/TM6C, Sb1
VDRC	v105999 P{KK105753}VIE-260B v32682 w1118 P{GD9175}v32682 v32683 w1118 P{GD9175}v32683
Genomic Clones ( 1 )
	BACR48K07 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 95 )
	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	LD26426 RE67017
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT16469 AT25744 GH07324 GH07411 GM02740 GM19759 LD04054 LD09304 LD13655 LD39626 LP10514 RE13275 RE21312 RE24003 RE24963 RE28718 RE49677 RE53241 RE54970 RE58649 RE67426 RE67452 RE72389 RE73902 RH02815 RH03644 RH03908 RH03954 SD17416 SD17886
Other clones	156 851 8940 9324 14564 17306 37789 39309 44270 74412 106224 190075 280397 CK01.6A.G7 CK01.15C.C7 CK01.50C.C3 CK01.76D.D5 CK01.141A.D6 EC03658 EC055434 EC251760 EC254946 EC255507 EK009228 EK040510 EK060015 EK085407 EK105062 EK107961 EK108561 EK116947 EK121741 EK155944 EK156212 EK157401 EK159547 EK174201 EK174534 EK203859 EK231850 EK292357 EK305337 EP01658 EP02437 EP16930 FGM212A09 FGM231G12 GM05038 RP004085758 RP004096260 RP004147166 RP004177811 RP004179027 RP004201385 RP004208428 RP004218786 RP004256061 RP004260079 RP004372355 RP004413443 RP004456664 RP004519099 RP004529411
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0039600 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 43399
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_143377 NM_170377 NM_176576 NM_176577 NM_001104487 NM_001104488 RefSeq (Proteins) • NP_651634 NP_733256 NP_788753 NP_788754 NP_001097957 NP_001097958 DDBJ / EMBL / GenBank • AA942301 AAF56816 AAK93161 AAN14302 AAO41607 AAO41608 ABW08793 ABW08794 AW942843 AY051737 Entrez Gene - A searchable database of RefSeq genes. • 43399 UniProtKB/TrEMBL • Q7KRW8
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • RNA-processing protein, HAT helix (IPR003107) Tetratricopeptide-like helical (IPR011990) Heat shock protein DnaJ, N-terminal (IPR001623)
Linkouts
	BioGRID - A database of protein and genetic interactions • 68275 DroID - A comprehensive database of gene and protein interactions. • FBgn0039600 DRSC - Results from RNAi screens. • FBgn0039600 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0039600 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG1646-RB FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0039600 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 43399 InParanoid A subset of ortholog calls from InParanoid. • AAEL013888-PA Aedes aegypti (mosquito) XP_392380.2 Apis mellifera (honey bee) XP_001951289.1 Acyrthosiphon pisum (pea aphid) At1g04080.1 Arabidopsis thaliana (wall cress) 117858 Branchiostoma floridae (lancelet) 117868 Branchiostoma floridae (lancelet) BGIBMGA004939-PA Bombyx mori (silk worm) ENSBTAP00000003373 Bos taurus (bovine) CN05796 Caenorhabditis brenneri (small nematode) CBP16513 Caenorhabditis briggsae (nematode) CE28000 Caenorhabditis elegans (worm) ENSCAFP00000020711 Canis familiaris (dog) JA06971 Caenorhabditis japonica (nematode) CPIJ005563 Culex pipens (mosquito) ENSCPOP00000001304 Cavia porcellus (guinea pig) RP48551 Caenorhabditis remanei (nematode) 180947 Capitella spl (polychaete worm) DDB0233547 Dictyostelium discoideum (amoeba) ENSDARP00000061671 Danio rerio (zebra fish) ENSECAP00000013137 Equus caballus (horse) ENSGACP00000016885 Gymnopilus aculeatus (mushroom) ENSGALP00000020349 Gallus gallus (chicken) ENSP00000348010 Homo sapiens (human) 229414 Lottia gigantea (owl limpet) ENSMODP00000009177 Monodelphis domestica (gray opossum) ENSMMUP00000014236 Macaca mulatta (rhesus monkey) ENSMUSP00000112953 Mus musculus (house mouse) 11203 Nematostella vectensis (starlet anemone) XP_001607328.1 Nasonia vitripennis (wasp) ENSOANP00000022075 Ornithorynchus anatinus (platypus) ENSORLP00000003420 Oryzias latipes (japanese killifish) LOC_Os03g11200.1 Oryza sativa (asian rice) PHUM001233-PA Pediculus humanus (human body louse) 119915 Physcomitrella patens (moss) ENSPPYP00000006566 Pongo pygmaeus (orangutan) 74778 Phytophthora ramorum (sudden oak death pathogen) 155731 Phytophthora sojae (root rot pathogen) 730568 Populus trichocarpa (black cottonwood) ENSPTRP00000044474 Pan troglodytes (chimpanzee) 4871941 Sorghum bicolor (sorghum) Smp_170570 Schistosoma mansoni (trematode parasite) 59779 Trichoplax adhaerens (metazoa) XP_970329.1 Tribolium castaneum (red flour beetle) ENSTNIP00000013912 Tetraodon nigroviridis (green spotted pufferfish) ENSTRUP00000029629 Takifugu rubripes (pufferfish Takifugu) ENSXETP00000006658 Xenopus tropicalis (frog) YALI0D16225g Yarrowia lipolytica (nonconventional yeast) InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 43399 modMine - Data generated by the modENCODE project. • FBgn0039600 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB17763 NV12851 LH18560 ISCW015529 FBgn0240957 FBgn0214116 FBgn0210149 FBgn0192818 FBgn0167674 JGI_V11_228312 FBgn0248178 FBgn0151408 FBgn0144969 FBgn0129882 FBgn0103912 FBgn0095607 CPIJ005563 BGIBMGA004939 ACYPI004573 ACYPI003809 AAEL013888 PHUM226800 PHUM226810 GLEAN_09607
Synonyms & Secondary IDs ( 2 )
Reported As
Symbol Synonym	CG1646 (Huang et al., 2005, Yasuhara and Wakimoto, 2008, Katzenberger et al., 2009, Keleman et al., 2009.8.5, McIntyre et al., 2006) Prp39 (Park et al., 2004, Katzenberger et al., 2009)
Name Synonym
Secondary FlyBase IDs
References ( 20 )
Research paper	Katzenberger et al., 2009, J. Biol. Chem. 284(16): 10737--10746 Control of alternative splicing by signal-dependent degradation of splicing-regulatory proteins. [FBrf0207843] Yasuhara and Wakimoto, 2008, PLoS Genet. 4(1): e16 Molecular landscape of modified histones in Drosophila heterochromatic genes and euchromatin-heterochromatin transition zones. [FBrf0202944] McIntyre et al., 2006, GenomeBiol. 7(8): Sex-specific expression of alternative transcripts in Drosophila. [FBrf0192874] Huang et al., 2005, RNA, N.Y. 11(8): 1303--1316 Genome-wide analyses of two families of snoRNA genes from Drosophila melanogaster, demonstrating the extensive utilization of introns for coding of snoRNAs. [FBrf0188305] Arbeitman et al., 2004, Development 131(9): 2007--2021 A genomic analysis of Drosophila somatic sexual differentiation and its regulation. [FBrf0174573] Park et al., 2004, Proc. Natl. Acad. Sci. USA 101(45): 15974--15979 Identification of alternative splicing regulators by RNA interference in Drosophila. [FBrf0180650] Mount and Salz, 2000, J. Cell Biol. 150(2): F37--F43 Pre-messenger RNA processing factors in the Drosophila genome. [FBrf0129982]
Supplementary material	The modENCODE Consortium, 2010, Science 330(6012): DataS14: Gene co-expression clusters. [FBrf0213979] Mummery-Widmer et al., 2009, Nature 458(7241): Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518] Giot et al., 2003, Science 302(5651): Tables S1 to S7. [FBrf0166452]
Personal communication to FlyBase	Bellen, 2010.2.16, BDGP_2010_0216.GenExel.xml BDGP_2010_0216.GenExel.xml [FBrf0210005] Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510] Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327] FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215] Ryder, 2004.4.26, Exelixis CG deletion data. Exelixis CG deletion data. [FBrf0184335]
FlyBase analysis	FlyBase Curators, 2008, Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations. Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations. [FBrf0202955] FlyBase, 1992-, FlyBase curation FlyBase curation. [FBrf0105495]
Computer file	BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. Berkeley Drosophila Genome Project. [FBrf0125078]
Automatic genome annotation	FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126705]