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Gene Dmel\CG4078

General Information
Symbol	Dmel\CG4078	Species	D. melanogaster
Name		Annotation symbol	CG4078
Feature type	protein_coding_gene	FlyBase ID	FBgn0029798
Gene Model Status	Current	Stock availability	4 publicly available
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	5B6-5B6	Sequence location	X:5,641,782..5,645,815 [+]
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\CG4078 (FBgn0029798). It is a protein_coding_gene from Drosophila melanogaster. Based on sequence similarity, it is predicted to have molecular function: ATP-dependent DNA helicase activity. Based on sequence similarity, it is predicted to be involved in the biological process: nucleotide-excision repair. 3 alleles are reported. The phenotype of these alleles is annotated with: trichogen cell. It has one annotated transcript and one annotated polypeptide. Protein features are: DEAD-like helicase; DEAD2; DNA helicase (DNA repair), Rad3 type; Helicase, ATP-dependent, c2 type; Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages, in adult female stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult ovary. Comments on Affy2 ProbeSet: ProbeSet 1636909_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of CG4078. Gene sequence location is X:5641782..5645815.
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 HFA18343 BKN20761
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 5B6-5B6   Limits computationally determined from genome sequence between P{EP}cvEP1349&P{EP}CG32758EP1368 and P{EP}EP404&P{EP}EP1405
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\CG4078 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) CG4078-RA FBtr0070807  NM_132026   3306   985
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 CG4078-PA   FBpp0070773   109.7   985   8.94     NP_572254   AAF46074
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Helicase, ATP-dependent, c2 type (IPR006555) DNA helicase (DNA repair), Rad3 type (IPR013020) DEAD-like helicase (IPR014001) Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type (IPR014013) DEAD2 (IPR010614)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA201474   AA390832   AA941680   AE014298 AAF46074   AI108930   AI135654   AI258738   AI456982   AI532567   BF504347   BI235384   BI235542   BI586611   BT011040   BT021290 AAX33438   CO265088   CO310988   CO312068   CO343291   EC051452   EC051927   EC051953   EC052914   EC053854   EC053858   EC055844   EC076140   EC197655   EC202454   EC221661   EC259535   EV585194   EV589690   GH748187   GH748926   GH750299   GH750839   GH752033   GH752991   GH754529   GH756944   GH757561   GH772378   GH773027   GH773266   GH773727   GH782189   GH785487   GH785607   GH786935   GH787578   GH794461   GH800745   GH804077   GH804588   GH804724   GH805007   GH805234   GH810077   GH825058   GH828115   GH829883   GH832390   GH833930   GH835414   GH835579   GH837280   GH839115   GH841979   GH848891   GH850173   GH852535   GH855076   GH858586   GH866738   GH868763   GH881512   GH884973   GH885155   GH891114   GH891542   GH895185   GH896552   GH899221   GH901174   GH904348   GH908125   GH908378   GH909033   GH911120   GH913204   GH913773   GH915595   GH917778   GH919279   GH919953   GH922562   GH922572   GH925550   GH927804   GH930778   GH933664   GH936841
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9W484
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
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 FBgn0029798    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0029798 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 moderately high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages, in adult female 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 FBgn0029798 expression level Developmental Stage   Expression Level embryo 00-02hr    3178 embryo 02-04hr    1577 embryo 04-06hr    1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day    1441 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (3178) embryo 02-04hr  (1577) embryo 04-06hr  (1634) embryo 06-08hr  (1034) embryo 08-10hr  (971) embryo 10-12hr  (706) embryo 12-14hr  (406) embryo 14-16hr  (467) embryo 16-18hr  (337) embryo 18-20hr  (198) embryo 20-22hr  (241) embryo 22-24hr  (252) larva L1  (729) larva L2  (506) larva L3 12hr old  (337) larva L3 puffstage 1-2  (222) larva L3 puffstage 3-6  (251) larva L3 puffstage 7-9  (237) white prepupae new  (221) white prepupae 12hr  (312) white prepupae 24hr  (295) pupae 2d postWPP  (168) pupae 3d postWPP  (130) pupae 4d postWPP  (180) adult male 01day  (173) adult male 05day  (174) adult male 30day  (190) adult female 01day  (862) adult female 05day  (1312) adult female 30day  (1441) Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (3178) embryo 02-04hr  (1577) embryo 04-06hr  (1634) embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day  1441 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    3178 embryo 02-04hr    1577 embryo 04-06hr    1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day    1441 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    3178 embryo 02-04hr    1577 embryo 04-06hr    1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day    1441 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0029798 expression level Developmental Stage   Expression Level embryo 00-02hr    3178 embryo 02-04hr    1577 embryo 04-06hr    1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day    1441 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (3178) embryo 02-04hr  (1577) embryo 04-06hr  (1634) embryo 06-08hr  (1034) embryo 08-10hr  (971) embryo 10-12hr  (706) embryo 12-14hr  (406) embryo 14-16hr  (467) embryo 16-18hr  (337) embryo 18-20hr  (198) embryo 20-22hr  (241) embryo 22-24hr  (252) larva L1  (729) larva L2  (506) larva L3 12hr old  (337) larva L3 puffstage 1-2  (222) larva L3 puffstage 3-6  (251) larva L3 puffstage 7-9  (237) white prepupae new  (221) white prepupae 12hr  (312) white prepupae 24hr  (295) pupae 2d postWPP  (168) pupae 3d postWPP  130 pupae 4d postWPP  (180) adult male 01day  (173) adult male 05day  (174) adult male 30day  (190) adult female 01day  (862) adult female 05day  (1312) adult female 30day  (1441) Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (3178) embryo 02-04hr  1577 embryo 04-06hr  1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day  1441 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    3178 embryo 02-04hr    1577 embryo 04-06hr    1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day    1441 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    3178 embryo 02-04hr    1577 embryo 04-06hr    1634 embryo 06-08hr    1034 embryo 08-10hr    971 embryo 10-12hr    706 embryo 12-14hr    406 embryo 14-16hr    467 embryo 16-18hr    337 embryo 18-20hr    198 embryo 20-22hr    241 embryo 22-24hr    252 larva L1    729 larva L2    506 larva L3 12hr old    337 larva L3 puffstage 1-2    222 larva L3 puffstage 3-6    251 larva L3 puffstage 7-9    237 white prepupae new    221 white prepupae 12hr    312 white prepupae 24hr    295 pupae 2d postWPP    168 pupae 3d postWPP    130 pupae 4d postWPP    180 adult male 01day    173 adult male 05day    174 adult male 30day    190 adult female 01day    862 adult female 05day    1312 adult female 30day    1441 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 FBgn0029798    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0029798 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: adult ovary. [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 FBgn0029798 expression level Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0029798 expression level Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    55.575 Larval Midgut    34 Larval Hindgut    33 Larval Malpighian Tubules no informative data Larval Fat Body    38.3 Larval Salivary Gland    50.5 Larval Trachea    40.875 Larval Carcass    51.4 Adult Head    31.9 Adult Eye no informative data Adult Brain    41.9 Adult Thoracic-Abdominal Ganglion    39.4 Adult Crop    34.7 Adult Midgut    34.6 Adult Hindgut    27.9 Adult Malpighian Tubules    35.3 Adult Fat Body    44.4 Adult Salivary Gland no informative data Adult Heart    20.425 Adult VirginFemale Spermatheca    47.6 Adult InseminatedFemale Spermatheca    48.8 Adult Ovary    138.5 Adult Testis    18.7 Adult Male Accessory Gland    26.7 Adult Carcass    33 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules no informative data Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye no informative data Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland no informative data 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    31.9   NA  Eye    no informative data   NA  Brain    41.9   55.575  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    39.4   NA  Crop    34.7   34  Midgut    34.6   33  Hindgut    27.9   no informative data  Malpighian Tubules    35.3   38.3  Fat Body    44.4   50.5  Salivary Gland    no informative data   NA  Heart    20.425   40.875  Trachea    NA   NA  VirginFemale Spermatheca    47.6   NA  InseminatedFemale Spermatheca    48.8   NA  Ovary    138.5   NA  Testis    18.7   NA  Male Accessory Gland    26.7   51.4  Carcass    33 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_13
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0029798 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4078-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for CG4078 Stages(s) 4-6 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 CG4078GD4251 Other Phenotypes Allele visible, with Scer\GAL4pnr-MD237 CG4078GD4251 Phenotype manifest in Allele trichogen cell, with Scer\GAL4pnr-MD237 CG4078GD4251
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of CG4078 Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of CG4078 Class Mutagen Stocks Known lesion CG4078GD4251 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes CG4078HMS00770 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes CG4078KK100665 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Disrupted in	Df(1)Exel6236 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4251} NA P{KK100665} NA P{TRiP.HMS00770} NA
Insertions
	Type of insertions Name Expression data
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
ATP binding inferred from electronic annotation with InterPro:IPR006555, InterPro:IPR010614 (FlyBase Curators et al., 2004-) ATP-dependent DNA helicase activity inferred from sequence or structural similarity with UniProtKB:O08811 (FlyBase, 1992-) DNA binding inferred from electronic annotation with InterPro:IPR010614 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
nucleotide-excision repair inferred from sequence or structural similarity with UniProtKB:O08811 (FlyBase, 1992-)
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 CG4078 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 57997 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0029798 DroID - A comprehensive database of gene and protein interactions. • FBgn0029798 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31497
Orthologs
Genome-wide drosophilid orthologs	Dana\GF20802 Dere\GG18780 Dgri\GH24089 Dmoj\GI15901 Dper\GL14463 Dpse\GA17940 Dsec\GM12432 Dvir\GJ16649 Dwil\GK24923 Dyak\GE16425
Curated drosophilid orthologs	Dpse\GA17940
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AAEL008960-PA Aedes aegypti (mosquito) AGAP000634-PA Anopheles gambiae (mosquito) XP_396001.3 Apis mellifera (honey bee) XP_001948918.1 Acyrthosiphon pisum (pea aphid) At1g79950.1 Arabidopsis thaliana (wall cress) 22849 Batrachochytrium dendrobatidis (chytrid fungus) 231064 Branchiostoma floridae (lancelet) XP_001894820.1 Brugia malayi (roundworm nematode) BGIBMGA002870-PA Bombyx mori (silk worm) ENSBTAP00000028108 Bos taurus (bovine) CN20417 Caenorhabditis brenneri (small nematode) CBP14383 Caenorhabditis briggsae (nematode) CE15894 Caenorhabditis elegans (worm) ENSCAFP00000019203 Canis familiaris (dog) Chro.60307 Cryptosporidium hominis (obligate parasite) ENSCINP00000005902 Ciona intestinalis (sea squirt) CMQ261C Cyanidioschyzon merolae (red alga) cgd6_2660 Cryptosporidium parvum (protozoan parasite) CPIJ003765 Culex pipens (mosquito) ENSCPOP00000012982 Cavia porcellus (guinea pig) 173679 Chlamidomonas reinhardtii (green alga) RP46563 Caenorhabditis remanei (nematode) ENSCSAVP00000003409 Ciona savignyi (sedentary tunicate) 179377 Capitella spl (polychaete worm) 128417 Daphnia pulex (daphnia) ENSDARP00000094904 Danio rerio (zebra fish) ENSECAP00000019999 Equus caballus (horse) NP_415320.1 Escherichia coli K12 (bacteria) NP_416322.1 Escherichia coli K12 (bacteria) XP_651401 Entamoeba histolytica (anaerobic protozoan) ENSGACP00000017614 Gymnopilus aculeatus (mushroom) ENSGALP00000009867 Gallus gallus (chicken) GL50803_5631 Giardia lamblia (flagellated protozoan) 79366 Hypsipyla robusta (cedar shoot borer) ENSP00000322287 Homo sapiens (human) ISCW019247-PA Ixodes scapularis (deer tick) 118438 Lottia gigantea (owl limpet) LmjF29.2660 Leishmania major (virus) 27129 Monocosta brevicollis (choanoflagellate) ENSMODP00000021212 Monodelphis domestica (gray opossum) ENSMMUP00000000233 Macaca mulatta (rhesus monkey) ENSMUSP00000053120 Mus musculus (house mouse) 168196 Nematostella vectensis (starlet anemone) XP_001606129.1 Nasonia vitripennis (wasp) ENSOANP00000018265 Ornithorynchus anatinus (platypus) ENSORLP00000024089 Oryzias latipes (japanese killifish) LOC_Os01g40980.1 Oryza sativa (asian rice) 16732 Ostreococcus tauri (green alga) PF14_0081 Plasmodium falciparum (protozoal parasite) PHUM003454-PA Pediculus humanus (human body louse) PP12391 Pristionchus pacificus (nematode) 112245 Physcomitrella patens (moss) ENSPPYP00000012562 Pongo pygmaeus (orangutan) 75577 Phytophthora ramorum (sudden oak death pathogen) 142420 Phytophthora sojae (root rot pathogen) 181064 Populus trichocarpa (black cottonwood) ENSPTRP00000044957 Pan troglodytes (chimpanzee) PVX_086025 Plasmodium vivax (protozoal parasite) ENSRNOP00000051909 Rattus norvegicus (norway rat) 5002094 Sorghum bicolor (sorghum) Smp_136280 Schistosoma mansoni (trematode parasite) 27892 Trichoplax adhaerens (metazoa) TA09995 Theileria annulata (apicomplexan parasite) XP_975038.1 Tribolium castaneum (red flour beetle) Tc00.1047053506697.40 Trypanosoma cruzi (parasitic trypanosome) Tc00.1047053508153.500 Trypanosoma cruzi (parasitic trypanosome) ENSTNIP00000017410 Tetraodon nigroviridis (green spotted pufferfish) TP04_0785 Theileria parva (parasitic protozoan) 32522 Thalassiosira pseudonana (marine diatom) ENSTRUP00000024839 Takifugu rubripes (pufferfish Takifugu) 3732.m00008 Tetrahymena thermophila (ciliate protozoa) 95674.m00220 Trichomonas vaginalis (parasitic flagellated protozoan) ENSXETP00000023459 Xenopus tropicalis (frog) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB16107 NV15675 LH22003 FBgn0233951 FBgn0226882 FBgn0226039 FBgn0226038 FBgn0225535 FBgn0225534 FBgn0223141 FBgn0203833 FBgn0188335 FBgn0167369 JGI_V11_128417 FBgn0077949 FBgn0152068 FBgn0138650 FBgn0131545 FBgn0110988 FBgn0097808 CPIJ003765 BGIBMGA002870 ACYPI002317 ACYPI000489 GB17842 RTEL1_ANOGA AAEL008960 PHUM003210 GLEAN_07666
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Bloomington	32973 y1 sc* v1; P{TRiP.HMS00770}attP2
VDRC	v107715 P{KK100665}VIE-260B v37606 w1118; P{GD4251}v37606 v37607 w1118; P{GD4251}v37607
Genomic Clones ( 2 )
	BACR11C13 BACR27C07 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 102 )
	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	GH08671 RE31401
Other clones	DPiM_RE31401
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT05692 GH07413 GH13485 LD04541 LD09066 LP02005 RE31224 RH26682 SD04121
Other clones	90 31549 100456 104357 214535.54 Dmel_dig_007023_0612_3751 Dmel_neb_010726_0439_0688 EC051452 EC051927 EC051953 EC052914 EC053854 EC053858 EC055844 EK141511 EK223118 EK227820 EP16460 LD27035 LD37173 RP003003058 RP003003111 RP003005778 RP003009475 RP003012515 RP003015240 RP003018503 RP003034579 RP003048983 RP003049730 RP003061251 RP003073061 RP003077664 RP003082718 RP003084015 RP003086568 RP003093592 RP003093740 RP003095190 RP003114718 RP003114992 RP003134584 RP003136836 RP003143526 RP003153003 RP003156238 RP003171250 RP003204024 RP003209020 RP003217593 RP003220297 RP003237942 RP003240401 RP003259019 RP003269310 RP003275974 RP003280562 RP003290998 RP003303569 RP003314936 RP003325952 RP003327975 RP003328083 RP003363040 RP003389392 RP003396177 RP003404008 RP003424546 RP003426957 RP003435812 RP003438864 RP003441442 RP003451850 RP003462511 RP003464760 RP003482689 RP003487432 RP003490160 RP003511817 RP003516860 RP003538547 RP003546931 RP003556082 RP003584783 RP003587832 RP003637547 RP003643303 RP003655196 RP003659284 RP003675762
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0029798 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31497
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_132026 RefSeq (Proteins) • NP_572254 DDBJ / EMBL / GenBank • AAF46074 AAX33438 BI235542 BT021290 Entrez Gene - A searchable database of RefSeq genes. • 31497 UniProtKB/TrEMBL • Q9W484
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Helicase, ATP-dependent, c2 type (IPR006555) DNA helicase (DNA repair), Rad3 type (IPR013020) DEAD-like helicase (IPR014001) Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type (IPR014013) DEAD2 (IPR010614)
Linkouts
	BioGRID - A database of protein and genetic interactions • 57997 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0029798 DroID - A comprehensive database of gene and protein interactions. • FBgn0029798 DRSC - Results from RNAi screens. • FBgn0029798 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0029798 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG4078-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0029798 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31497 InParanoid A subset of ortholog calls from InParanoid. • AAEL008960-PA Aedes aegypti (mosquito) AGAP000634-PA Anopheles gambiae (mosquito) XP_396001.3 Apis mellifera (honey bee) XP_001948918.1 Acyrthosiphon pisum (pea aphid) At1g79950.1 Arabidopsis thaliana (wall cress) 22849 Batrachochytrium dendrobatidis (chytrid fungus) 231064 Branchiostoma floridae (lancelet) XP_001894820.1 Brugia malayi (roundworm nematode) BGIBMGA002870-PA Bombyx mori (silk worm) ENSBTAP00000028108 Bos taurus (bovine) CN20417 Caenorhabditis brenneri (small nematode) CBP14383 Caenorhabditis briggsae (nematode) CE15894 Caenorhabditis elegans (worm) ENSCAFP00000019203 Canis familiaris (dog) Chro.60307 Cryptosporidium hominis (obligate parasite) ENSCINP00000005902 Ciona intestinalis (sea squirt) CMQ261C Cyanidioschyzon merolae (red alga) cgd6_2660 Cryptosporidium parvum (protozoan parasite) CPIJ003765 Culex pipens (mosquito) ENSCPOP00000012982 Cavia porcellus (guinea pig) 173679 Chlamidomonas reinhardtii (green alga) RP46563 Caenorhabditis remanei (nematode) ENSCSAVP00000003409 Ciona savignyi (sedentary tunicate) 179377 Capitella spl (polychaete worm) 128417 Daphnia pulex (daphnia) ENSDARP00000094904 Danio rerio (zebra fish) ENSECAP00000019999 Equus caballus (horse) NP_415320.1 Escherichia coli K12 (bacteria) NP_416322.1 Escherichia coli K12 (bacteria) XP_651401 Entamoeba histolytica (anaerobic protozoan) ENSGACP00000017614 Gymnopilus aculeatus (mushroom) ENSGALP00000009867 Gallus gallus (chicken) GL50803_5631 Giardia lamblia (flagellated protozoan) 79366 Hypsipyla robusta (cedar shoot borer) ENSP00000322287 Homo sapiens (human) ISCW019247-PA Ixodes scapularis (deer tick) 118438 Lottia gigantea (owl limpet) LmjF29.2660 Leishmania major (virus) 27129 Monocosta brevicollis (choanoflagellate) ENSMODP00000021212 Monodelphis domestica (gray opossum) ENSMMUP00000000233 Macaca mulatta (rhesus monkey) ENSMUSP00000053120 Mus musculus (house mouse) 168196 Nematostella vectensis (starlet anemone) XP_001606129.1 Nasonia vitripennis (wasp) ENSOANP00000018265 Ornithorynchus anatinus (platypus) ENSORLP00000024089 Oryzias latipes (japanese killifish) LOC_Os01g40980.1 Oryza sativa (asian rice) 16732 Ostreococcus tauri (green alga) PF14_0081 Plasmodium falciparum (protozoal parasite) PHUM003454-PA Pediculus humanus (human body louse) PP12391 Pristionchus pacificus (nematode) 112245 Physcomitrella patens (moss) ENSPPYP00000012562 Pongo pygmaeus (orangutan) 75577 Phytophthora ramorum (sudden oak death pathogen) 142420 Phytophthora sojae (root rot pathogen) 181064 Populus trichocarpa (black cottonwood) ENSPTRP00000044957 Pan troglodytes (chimpanzee) PVX_086025 Plasmodium vivax (protozoal parasite) ENSRNOP00000051909 Rattus norvegicus (norway rat) 5002094 Sorghum bicolor (sorghum) Smp_136280 Schistosoma mansoni (trematode parasite) 27892 Trichoplax adhaerens (metazoa) TA09995 Theileria annulata (apicomplexan parasite) XP_975038.1 Tribolium castaneum (red flour beetle) Tc00.1047053506697.40 Trypanosoma cruzi (parasitic trypanosome) Tc00.1047053508153.500 Trypanosoma cruzi (parasitic trypanosome) ENSTNIP00000017410 Tetraodon nigroviridis (green spotted pufferfish) TP04_0785 Theileria parva (parasitic protozoan) 32522 Thalassiosira pseudonana (marine diatom) ENSTRUP00000024839 Takifugu rubripes (pufferfish Takifugu) 3732.m00008 Tetrahymena thermophila (ciliate protozoa) 95674.m00220 Trichomonas vaginalis (parasitic flagellated protozoan) ENSXETP00000023459 Xenopus tropicalis (frog) InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 31497 modMine - Data generated by the modENCODE project. • FBgn0029798 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB16107 NV15675 LH22003 FBgn0233951 FBgn0226882 FBgn0226039 FBgn0226038 FBgn0225535 FBgn0225534 FBgn0223141 FBgn0203833 FBgn0188335 FBgn0167369 JGI_V11_128417 FBgn0077949 FBgn0152068 FBgn0138650 FBgn0131545 FBgn0110988 FBgn0097808 CPIJ003765 BGIBMGA002870 ACYPI002317 ACYPI000489 GB17842 RTEL1_ANOGA AAEL008960 PHUM003210 GLEAN_07666
Synonyms & Secondary IDs ( 1 )
Reported As
Symbol Synonym	CG4078 (Legube et al., 2006, Keleman et al., 2009.8.5, Tomancak et al., 2007, Ni et al., 2010.12.1)
Name Synonym
Secondary FlyBase IDs
References ( 14 )
Research paper	Tomancak et al., 2007, Genome Biol. 8(7): R145 Global analysis of patterns of gene expression during Drosophila embryogenesis. [FBrf0205271] Legube et al., 2006, Genes Dev. 20(7): 871--883 X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in Drosophila. [FBrf0190549]
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]
Personal communication to FlyBase	Ni et al., 2010.12.1, A genome-scale shRNA resource for transgenic RNAi in Drosophila. A genome-scale shRNA resource for transgenic RNAi in Drosophila. [FBrf0212437] 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, 1992-, FlyBase curation FlyBase curation. [FBrf0105495]
Computer file	BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. Berkeley Drosophila Genome Project. [FBrf0125078]
Curated genome annotation	Burtis, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126655]
Automatic genome annotation	FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126705]