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Gene Dmel\car

General Information
Symbol	Dmel\car	Species	D. melanogaster
Name	carnation	Annotation symbol	CG12230
Feature type	protein_coding_gene	FlyBase ID	FBgn0000257
Gene Model Status	Current	Stock availability	53 publicly available
Also Known As	Vps33, VPS33a
Genomic Location
Chromosome (arm)	X	Recombination map	1-62.5
Cytogenetic map	18D1-18D1	Sequence location	X:19,460,052..19,463,434 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene carnation is referred to in FlyBase by the symbol Dmel\car (CG12230, FBgn0000257). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: protein binding. There is experimental evidence for 11 unique biological process terms, many of which group under: cellular component organization or biogenesis; localization; pigmentation; transport; vacuolar transport; organelle organization; eye pigmentation; cellular macromolecule metabolic process; determination of adult lifespan; organic cyclic compound biosynthetic process; biological regulation. 18 alleles are reported. The phenotypes of these alleles are annotated with: Malpighian tubule; mesothoracic tergum; rhabdomere; eye; late endosome; embryonic/larval brain; endosome; ommatidium; pigment cell. It has 3 annotated transcripts and 3 annotated polypeptides. Protein features are: Sec1-like protein; Vacuolar protein sorting-associated protein 33. 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 head, larval/adult central nervous system, adult salivary gland, larval carcass. Comments on Affy2 ProbeSet: ProbeSet 1629509_s_at completely aligns to an exonic region common to each of the 2 FlyBase-annotated transcript isoforms of car. Gene sequence location is X:19460052..19463434.
User Contributed Data
	Beta version, feedback welcome
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	car: carnation Eye color dark ruby. Body shape and proportions seem rounded. With st, eye color is yellow-brown; with bw, brownish yellow to brown (Mainx, 1938, Z. Indukt. Abstamm. Vererbungsl. 75: 256-76). Malpighian tubes pale yellow in mature larva (Beadle, 1937, Genetics 22: 587-611) but hard to distinguish from wild type before third instar. Eye color autonomous in transplant into wild-type host (Beadle and Ephrussi, 1936, Genetics 21: 230). car dor is pupal lethal and shows reduced recovery in gynandromorphs with male parts car dor (Nash, 1971, DIS 47: 73). car lt also lethal, dies as larva when mother car;lt/+ or car/+;lt and as pupa when mother car/+;lt/+ (Nickla, 1977, Nature 268: 638-39); lethal focus domineering; fate maps to ventral nervous system (Nickla, Lilly, and McCarthy, 1980, Experientia 36: 402-05). Brain histology abnormal [McCarthy and Nickla, 1980, Experientia 36: 1361-63 (fig.)].
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 18D1-18D1   Limits computationally determined from genome sequence between P{EP}EP1526&P{EP}PfrxEP1150 and P{EP}Tao-1EP1455
Experimentally Determined Cytological Location
Cytogenetic map Notes References 18D1-18D4   (determined by in situ hybridisation)   (Peter et al., 2002) 18D1-18D4   (determined by in situ hybridisation)   (Schaefer et al., 1999.12.2) 18D1-18D2     (Lindsley and Grell, 1968)
Experimentally Determined Recombination Data
Location	1-62.5
Left of (cM)	sol (Fischbach and Lyly-Hunerberg, 1983) l(1)adl13 l(1)adl15 l(1)adl14 (Homyk et al., 1986)
Right of (cM)	l(1)adl8 l(1)adl9 l(1)adl7 l(1)adl6 l(1)adl10 l(1)adl12 l(1)adl11 l(1)adl3 (Homyk et al., 1986)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\car for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.40 gene_with_stop_codon_read_through ; SO:0000697 Gene model reviewed during 5.44 Stop-codon suppression (UGA) postulated; FBrf0216884.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) car-RA FBtr0074728  NM_078686   3095   617 car-RB FBtr0074727  NM_167664   3173   617 car-RC FBtr0331158  NM_001272778   3173   639
Additional Transcript Data & Comments
Reported size (kB)	3.022 (longest cDNA) (Sevrioukov et al., 1999)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein car-PA   FBpp0074497   68.8   617   6.74     NP_523410   AAF48972 car-PB   FBpp0074496   68.8   617   6.74     NP_728266   AAN09503 car-PC   FBpp0303585   71.2   639   7.13     NP_001259707   AGB95547
Additional Polypeptide Data & Comments
Reported size (kDa)	617 (aa) (Sevrioukov et al., 1999)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Sec1-like protein (IPR001619) Vacuolar protein sorting-associated protein 33 (IPR027121) Sec1-like, domain 2 (IPR027482)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA264748   AA817218   AA940832   AE014298 AAF48972   AE014298 AAN09503   AF133260 AAD38513   AE014298 AGB95547   AI258414   AI389000   AI514335   AI519211   AJ426996   AW942637   AY069498 AAL39643   BF490882   BF492272   BI235432   BI236587   BI483836   CL526132   CO154770   CO155380   CO157081   CO278201   CO289355   CO299898   CO304833   CO321088   CO345293   EC070276   EC218019   EC233134   EC254010   EC261016   EC263864   GH945176   GH947058   GH948821   GH948921   GH949779   GH952654   GH953323   GH954200   GH955621   GH955697   GH955884   GH956680   GH957183   GH957633   GH957733   GH958304   GH958557   GH959786   GH960707   GH961054   GH963036   GH965483   GH965882   GH966728   GH967100   GH969899   GH969971   GH971649   GH971759   GH971971   GH972505   GH972979   GH973179   GH974916   GH974981   GH975440   GH976052   GH977677   GH978675   GH978711   GH979469   GH980010   GH980201   GH980321   GH982817
UniProtKB/Swiss-Prot	Q9Y1I2
UniProtKB/TrEMBL	A4V4S5
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) embryonic stage 9 -- 10   anterior endoderm   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) organism | faint & ubiquitous   (Fisher et al., 2012) posterior endoderm   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 11 -- 12   amnioserosa   (Fisher et al., 2012) anterior midgut primordium   (Fisher et al., 2012) fat body primordium   (Fisher et al., 2012) Comment:reported as fat body specific anlage fat body/gonad primordium   (Fisher et al., 2012) garland cell primordium   (Fisher et al., 2012) head mesoderm   (Fisher et al., 2012) organism | faint & ubiquitous   (Fisher et al., 2012) plasmatocyte primordium   (Fisher et al., 2012) Comment:reported as plasmatocytes anlage posterior midgut primordium   (Fisher et al., 2012) trunk mesoderm   (Fisher et al., 2012) embryonic stage 13 -- 16   crystal cell   (Fisher et al., 2012) embryonic/larval fat body   (Fisher et al., 2012) embryonic/larval garland cell   (Fisher et al., 2012) embryonic/larval midgut   (Fisher et al., 2012) organism | faint & ubiquitous   (Fisher et al., 2012) plasmatocyte   (Fisher et al., 2012)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
lysosome inferred from direct assay (assigned by UniProtKB) (Sevrioukov et al., 1999)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult head, larval/adult central nervous system, adult salivary gland, larval 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 (>999.999) Linear, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  None   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    190.525 Larval Midgut    92.7 Larval Hindgut    99.4 Larval Malpighian Tubules    66.7 Larval Fat Body    58.3 Larval Salivary Gland    99.5 Larval Trachea    81.4 Larval Carcass    102.5 Adult Head    102.6 Adult Eye    98.375 Adult Brain    179.4 Adult Thoracic-Abdominal Ganglion    186.6 Adult Crop    81.1 Adult Midgut    56 Adult Hindgut    67.9 Adult Malpighian Tubules    54.1 Adult Fat Body    87.1 Adult Salivary Gland    112.8 Adult Heart    88.075 Adult VirginFemale Spermatheca    64.3 Adult InseminatedFemale Spermatheca    59.3 Adult Ovary    42.8 Adult Testis    11.1 Adult Male Accessory Gland    73.4 Adult Carcass    63.8 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    102.6   NA  Eye    98.375   NA  Brain    179.4   190.525  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    186.6   NA  Crop    81.1   92.7  Midgut    56   99.4  Hindgut    67.9   66.7  Malpighian Tubules    54.1   58.3  Fat Body    87.1   99.5  Salivary Gland    112.8   NA  Heart    88.075   81.4  Trachea    NA   NA  VirginFemale Spermatheca    64.3   NA  InseminatedFemale Spermatheca    59.3   NA  Ovary    42.8   NA  Testis    11.1   NA  Male Accessory Gland    73.4   102.5  Carcass    63.8 FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Tissue Expression Data (modENCODE_mRNA-Seq_tissues)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Extremely high  log, scaled to maximum expression level Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Tissue   Expression Level imaginal disc, larvae L3 wandering    5 central nervous system, larvae L3    7 central nervous system, pupae P8    4 head, virgin 1-day female    4 head, virgin 4-day female    3 head, virgin 20-day female    5 head, mated 1-day female    2 head, mated 4-day female    3 head, mated 20-day female    3 head, mated 1-day male    5 head, mated 4-day male    5 head, mated 20-day male    5 salivary gland, larvae L3 wandering    1 salivary gland, white prepupae    2 digestive system, larvae L3 wandering    4 digestive system, 1-day adult    4 digestive system, 4-day adult    3 digestive system, 20-day adult    4 fat body, larvae L3 wandering    2 fat body, white prepupae    3 fat body, pupae P8    2 carcass, larvae L3 wandering    3 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    3 ovary, virgin 4-day female    13 ovary, mated 4-day female    10 testis, mated 4-day male    8 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Tissue   Expression Level imaginal disc, larvae L3 wandering     central nervous system, larvae L3     central nervous system, pupae P8     head, virgin 1-day female     head, virgin 4-day female     head, virgin 20-day female     head, mated 1-day female     head, mated 4-day female     head, mated 20-day female     head, mated 1-day male     head, mated 4-day male     head, mated 20-day male     salivary gland, larvae L3 wandering     salivary gland, white prepupae     digestive system, larvae L3 wandering     digestive system, 1-day adult     digestive system, 4-day adult     digestive system, 20-day adult     fat body, larvae L3 wandering     fat body, white prepupae     fat body, pupae P8     carcass, larvae L3 wandering     carcass, 1-day adult     carcass, 4-day adult     carcass, 20-day adult     ovary, virgin 4-day female     ovary, mated 4-day female     testis, mated 4-day male     accessory gland, mated 4-day male
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (modENCODE_mRNA-Seq_U)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of 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/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (32) embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    32 embryo 02-04hr    19 embryo 04-06hr    17 embryo 06-08hr    13 embryo 08-10hr    14 embryo 10-12hr    16 embryo 12-14hr    9 embryo 14-16hr    9 embryo 16-18hr    7 embryo 18-20hr    7 embryo 20-22hr    6 embryo 22-24hr    5 larva L1    7 larva L2    6 larva L3 12hr old    6 larva L3 puffstage 1-2    5 larva L3 puffstage 3-6    7 larva L3 puffstage 7-9    8 white prepupae new    7 white prepupae 12hr    9 white prepupae 24hr    9 pupae 2d postWPP    7 pupae 3d postWPP    4 pupae 4d postWPP    10 adult male 01day    7 adult male 05day    8 adult male 30day    8 adult female 01day    14 adult female 05day    19 adult female 30day    20 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Cell Line Expression Data (modENCODE_mRNA-Seq_cell.A) (modENCODE_mRNA-Seq_cell.B)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Cell Line   Expression Level Schneider line 2 S2R+    11 Schneider line 2 Sg4    11 embryonic 1182-4H    12 embryonic GM2    14 embryonic Kc167    18 embryonic S1    10 embryonic S3    6 leg disc CME L1    10 wing disc CME-W2    14 wing disc ML-DmD8    8 wing disc ML-DmD9    8 wing disc ML-DmD16-c3    5 wing disc ML-DmD21    9 wing disc ML-DmD32    7 haltere disc ML-DmD17-c3    6 eye-antennal disc ML-DmD11    9 antennal disc ML-DmD20-c5    7 mixed discs ML-DmD4-c1    7 CNS ML-DmBG1-c1    8 CNS ML-DmBG2-c2    7 tumorous blood cells mbn2    5 ovary fGS/OSS    7 ovary OSC    4 ovary OSS    2 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Cell Line   Expression Level Schneider line 2 S2R+     Schneider line 2 Sg4     embryonic 1182-4H     embryonic GM2     embryonic Kc167     embryonic S1     embryonic S3     leg disc CME L1     wing disc CME-W2     wing disc ML-DmD8     wing disc ML-DmD9     wing disc ML-DmD16-c3     wing disc ML-DmD21     wing disc ML-DmD32     haltere disc ML-DmD17-c3     eye-antennal disc ML-DmD11     antennal disc ML-DmD20-c5     mixed discs ML-DmD4-c1     CNS ML-DmBG1-c1     CNS ML-DmBG2-c2     tumorous blood cells mbn2     ovary fGS/OSS     ovary OSC     ovary OSS
modENCODE Treatments RNA-Seq
modENCODE Treatment Expression Data (modENCODE_mRNA-Seq_treatments)    Styles Linear Logarithmic Heatmap    Scales gene max expression Moderate expression bin max High expression bin max Extremely high expression bin max [download data (TSV)] Guide to modENCODE expression level colors   No/Extremely low expression (0 - 0)   Very low expression (1 - 3)   Low expression (4 - 10)   Moderate expression (11 - 25)   Moderately high expression (26 - 50)   High expression (51 - 100)   Very high expression (101 - 1000)   Extremely high expression (>1000) Linear, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Treatment   Expression Level extended cold, 4-day adult    4 cold shock, 4-day adult    3 heat shock, 4-day adult    7 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    2 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    9 Copper 0.5 mM 12 hrs, larvae L3    3 Copper 15 mM 48 hrs, 4-day adult    2 Zinc 5 mM 12 hrs, larvae L3    3 Zinc 4.5 mM 48 hrs, 4-day adult    3 Ethanol 2.5% 3 hrs, larvae L3    13 Ethanol 5% 3 hrs, larvae L3    3 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    3 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    9 Caffeine 25 mg/ml 48 hrs, 4-day adult    3 Paraquat 5 mM 48 hrs, 4-day adult    7 Paraquat 10 mM 48 hrs, 4-day adult    9 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    4 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Treatment   Expression Level extended cold, 4-day adult     cold shock, 4-day adult     heat shock, 4-day adult     Cadmium 50 mM 6 hrs, larvae L3     Cadmium 50 mM 12 hrs, larvae L3     Cadmium 50 mM 48 hrs, 4-day adult     Cadmium 100 mM 48 hrs, 4-day adult     Copper 0.5 mM 12 hrs, larvae L3     Copper 15 mM 48 hrs, 4-day adult     Zinc 5 mM 12 hrs, larvae L3     Zinc 4.5 mM 48 hrs, 4-day adult     Ethanol 2.5% 3 hrs, larvae L3     Ethanol 5% 3 hrs, larvae L3     Ethanol 10% 3 hrs, larvae L3     Caffeine 1.5 mg/ml 4 hrs, larvae L3     Caffeine 2.5 mg/ml 48 hrs, 4-day adult     Caffeine 25 mg/ml 48 hrs, 4-day adult     Paraquat 5 mM 48 hrs, 4-day adult     Paraquat 10 mM 48 hrs, 4-day adult     Rotenone 2 μg 12 hrs, larvae L3     Rotenone 8 μg 12 hrs, larvae L3
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_13 mE1_20_mRNA_expression_cluster_05
External Data & Images
Linkouts	BDGP expression data • LD22396 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0000257 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG12230-RB FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for car Stages(s) 1-3 Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 11-12 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | pupal stage, with Scer\GAL4Scer\FRT.Act5C cardsRNA.Scer\UAS lethal | recessive | second instar larval stage carΔ146 partially lethal - majority die | pupal stage, with Scer\GAL4pnr-MD237 carGD1397 partially lethal - majority die | recessive carG0447 viable car1 carEY09656 Sterility Allele fertile carEY09656 Other Phenotypes Allele eye color defective car1 car2 car26-48 carunspecified eye color defective, with Scer\GAL4Scer\FRT.Act5C cardsRNA.Scer\UAS short lived | male car1 visible, with Scer\GAL4pnr-MD237 carGD1397 visible | recessive car1 car2 car26-48 visible | recessive | somatic clone carΔ146 wild-type carGMR.PS Phenotype manifest in Allele embryonic/larval brain car1 endosome car1 eye car1 late endosome car1 Malpighian tubule car1 mesothoracic tergum, with Scer\GAL4pnr-MD237 carGD1397 ommatidium car1 ommatidium | somatic clone carΔ146 pigment cell car1 car2 car26-48 carunspecified pigment cell | somatic clone carΔ146 rhabdomere car1 rhabdomere | cell autonomous | somatic clone carΔ146 wing | somatic clone carΔ146
Classical Alleles ( 10 )
For All Classical Alleles Show
Allele of car Class Mutagen Stocks Known lesion car1 X ray 48 Yes carEY09656 P-element activity 1 -- carG0447 P-element activity 1 -- car26-48 bis(2-chloroethyl) sulfide 0 -- car2 0 -- carunspecified 0 -- carΔ141 P-element activity 0 Yes carΔ146 loss of function allele P-element activity 0 Yes carΔ163 P-element activity 0 Yes carΔ33 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 8 )
For All Alleles Carried on Transgenic Constructs Show
Allele of car Class Mutagen Stocks Known lesion carGD1397 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes carHMS00972 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes car+t4.4 in vitro construct - genomic fragment 0 Yes cardsRNA.Scer\UAS in vitro construct - regulatory fusion in vitro construct - RNAi 0 Yes carGMR.PS in vitro construct - regulatory fusion 0 Yes carKK108988 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes carNIG.12230R in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes carScer\UAS.cAa in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(1)14.4 (Gomez et al., 2012) Df(1)268 (Patterson, 1932) Df(1)BSC275 (Christensen and Cook, 2007.3.22) In(1)ClLbbDfR   In(1)y4Lsc4R   In(1)y4Lsc8R   Tp(1;2)26 (Pontecorvo, 1942)
Duplicated in	Dp(1;3)DC363 (Popodi, 2010.10.8, Venken et al., 2010) Dp(1;3)DC364 (Popodi et al., 2010-, Venken et al., 2010) Dp(1;f)3 (Schalet and Finnerty, 1968) Dp(1;f)52 (Schalet and Finnerty, 1968) Dp(1;f)100 (Morgan, 1938) In(1)bbDfLClR   In(1)bbDfLy4R   In(1)sc4Ly4R   In(1)sc8Ly4R   In(1)y3PLsc9R
Not disrupted in	Df(1)244 (Patterson, 1932) Df(1)267 (Patterson, 1932) Df(1)274 (Patterson, 1932) Df(1)D43L1 (Schalet and Finnerty, 1968) Df(1)DCB1-35c (Schalet and Finnerty, 1968) Df(1)JA27 (Craymer and Roy, 1980) Df(1)mal6 (Schalet and Finnerty, 1968) Df(1)mal8 (Schalet and Finnerty, 1968) Df(1)mal10 (Schalet and Finnerty, 1968) Df(1)mal13 (Schalet and Finnerty, 1968) Df(1)O4 (Oliver, 1937) In(1)ClLy4R
Not duplicated in	Dp(1;f)65 (Gethmann, 1967) Dp(1;f)65XC2 (Gethmann, 1967) Dp(1;f)sc7.2   Dp(1;Y)mal+   Ts(1Rt;3Lt)102
Partially disrupted in	Df(1)carΔ33 (Akbar et al., 2009) Df(1)carΔ141 (Akbar et al., 2009) Df(1)carΔ163 (Akbar et al., 2009)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD1397} NA P{KK108988} NA P{NIG.12230R} NA P{TRiP.HMS00972} NA P{UAS-car.A} NA P{UAS-car.WIZ} NA characterization construct P{car+t4.4} NA P{GMR-car.S} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EPgy2}carEY09656 NA insertion of enhancer trap P{lacW}carG0447 No P{lacW}l(1)G0041G0041 No
Gene Ontology: Function, Process & Cellular Component ( 20 unique terms )
Terms Based on Experimental Evidence ( 13 terms )
Molecular Function
CV term Evidence References
protein binding inferred from physical interaction with dor (assigned by UniProtKB) (Sevrioukov et al., 1999)
Biological Process
CV term Evidence References
autophagic vacuole fusion inferred from mutant phenotype (Akbar et al., 2009) compound eye pigmentation inferred from mutant phenotype (Falcon-Perez et al., 2007, Chi et al., 2010) determination of adult lifespan inferred from mutant phenotype (Simonsen et al., 2007) endocytosis inferred from mutant phenotype (Wilkin et al., 2008) endosome organization inferred from mutant phenotype (Sriram et al., 2003) endosome to lysosome transport inferred from mutant phenotype (Akbar et al., 2009) eye pigment granule organization inferred from mutant phenotype (Akbar et al., 2009) inferred from mutant phenotype (assigned by UniProtKB) (Sevrioukov et al., 1999) Notch receptor processing inferred from mutant phenotype (Wilkin et al., 2008) ommochrome biosynthetic process inferred from mutant phenotype (Tearle, 1991) protein targeting to lysosome inferred from mutant phenotype (assigned by UniProtKB) (Sevrioukov et al., 1999) regulation of protein ubiquitination inferred from mutant phenotype (Simonsen et al., 2007)
Cellular Component
CV term Evidence References
lysosome inferred from direct assay (assigned by UniProtKB) (Sevrioukov et al., 1999)
Terms Based on Predictions or Assertions ( 9 terms )
Molecular Function
CV term Evidence References
SNARE binding inferred from sequence or structural similarity (Littleton, 2000)
Biological Process
CV term Evidence References
compound eye pigmentation traceable author statement (Toonen and Verhage, 2003) endosome to lysosome transport traceable author statement (Toonen and Verhage, 2003, Luzio et al., 2000) intracellular transport traceable author statement (Narayanan and Ramaswami, 2001) lysosome organization non-traceable author statement (Kramer, 1999.3.5) vesicle docking involved in exocytosis inferred from electronic annotation with InterPro:IPR001619 (FlyBase Curators et al., 2004-) vesicle-mediated transport inferred from sequence or structural similarity (Littleton, 2000)
Cellular Component
CV term Evidence References
cytosol traceable author statement (Toonen and Verhage, 2003) membrane traceable author statement (Toonen and Verhage, 2003)
Sequence Ontology: Class of Gene
	gene_with_stop_codon_read_through (Jungreis et al., 2011) nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
car - ema anti tag coimmunoprecipitation, western blot (Kim et al., 2010) car - pgant8 anti tag coimmunoprecipitation, peptide massfingerprinting (Mintseris et al., 2009.11.23)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions car allele Gene References car1 dor (Sriram et al., 2003) lt (Nickla et al., 1980, Warner et al., 1998) carunspecified w (Lloyd et al., 2002) unspecified bchs (Simonsen et al., 2007) g (Lindsley and Grell, 1968)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 59247 DroID - A comprehensive database of gene and protein interactions. • FBgn0000257 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 32947
Orthologs
OrthoDB Orthologs (53) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6DR9XW Dipteran inclusive ortholog search EOG6F7NT8 Insect inclusive ortholog search EOG65HQSG Arthropod inclusive ortholog search EOG6K3JBC Metazoa inclusive ortholog search EOG61VXW2
Orthologs in Drosophila Species (EOG6DR9XW)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\car     Drosophila simulans   Dsim\GD17447 Y   Drosophila sechellia   Dsec\GM22966 Y   Drosophila erecta   Dere\GG19231 Y   Drosophila yakuba   Dyak\GE15849 Y   Drosophila ananassae   Dana\GF20198 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA11493 Y   Drosophila persimilis   Dper\GL14537     Drosophila persimilis   Dper\GL14536     Drosophila willistoni   Dwil\GK10350 Y   Drosophila virilis   Dvir\GJ16477 Y   Drosophila mojavensis   Dmoj\GI21456 Y   Drosophila grimshawi   Dgri\GH12312 Y
Orthologs in non-Drosophila Dipterans (EOG6F7NT8)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL000214   Anopheles gambiae Malaria mosquito  Agam\AGAP003203   Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ013822
Orthologs in non-Dipteran Insects (EOG65HQSG)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB41103   Apis mellifera Western honey bee  Amel\car   Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG013521   Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH17045   Atta cephalotes Leafcutter ant  Acep\ACEP24260   Camponotus floridanus Florida carpenter ant  Cflo\CFLO20946   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL16475   Linepithema humile Argentine ant  Lhum\LH25249   Pogonomyrmex barbatus Red harvester ant  Pbar\PB14182   Solenopsis invicta Red fire ant  Sinv\SINV16623   Acyrthosiphon pisum Pea aphid  Apim\ACYPI004826   Bombyx mori Silkmoth  Bmor\BGIBMGA008046   Pediculus humanus Human body louse  Phum\PHUM608030   Tribolium castaneum Red flour beetle  Tcas\TC006102
Orthologs in non-Insect Arthropods (EOG6K3JBC)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\JGI_V11_329944   Daphnia pulex Water flea  Dpux\EF1A   Ixodes scapularis Deer tick  Isca\ISCW000790
Orthologs in non-Arthropod Metazoa (EOG61VXW2)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\vps-33.1   Caenorhabditis elegans Nematode  Cele\vps-33.2   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_017144gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_014654gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_002218gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_011548gn   Strongylocentrotus purpuratus Purple sea urchin  Spur\SPU_023451gn   Danio rerio Zebrafish  Drer\ENSDARG00000079019   Danio rerio Zebrafish  Drer\vps33a   Danio rerio Zebrafish  Drer\vps33b   Xenopus tropicalis Western clawed frog  Xtro\vps33b   Xenopus tropicalis Western clawed frog  Xtro\ENSXETG00000031342   Gallus gallus Domestic chicken  Ggal\VPS33B   Gallus gallus Domestic chicken  Ggal\VPS33A   Mus musculus House mouse  Mmus\Vps33a   Mus musculus House mouse  Mmus\Vps33b   Rattus norvegicus Norway rat  Rnor\Vps33b   Rattus norvegicus Norway rat  Rnor\ENSRNOG00000008562   Homo sapiens Human  Hsap\VPS33B   Homo sapiens Human  Hsap\VPS33A
Human Orthologs (2)
Gene OMIM HGNC Hsap\VPS33B     Hsap\VPS33A
AAA Orthologs (10) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD17447 Drosophila sechellia Dsec\GM22966 Drosophila erecta Dere\GG19231 Drosophila yakuba Dyak\GE15849 Drosophila ananassae Dana\GF20198 Drosophila pseudoobscura pseudoobscura Dpse\GA11493 Drosophila willistoni Dwil\GK10350 Drosophila virilis Dvir\GJ16477 Drosophila mojavensis Dmoj\GI21456 Drosophila grimshawi Dgri\GH12312
Stocks & Reagents
Stocks Listed in FlyBase ( 53 )
Bloomington	19 car1 20 car1 su(f)8 579 Df(1)JF5, f1 car1/FM7a 12257 w67c23 P{lacW}carG0447 788 In(1)rst3, y1 car1
Kyoto	105680 car1 101065 car1 su(f)8 101194 v1 f3N car1 105990 Df(1)JF5, f1 car1/FM7a 105690 ec1 ct6 s1 car1/FM6
VDRC	v4548 w1118; P{GD1397}v4548 v4547 w1118; P{GD1397}v4547/CyO
	More stocks available...
Genomic Clones ( 2 )
	BACR10M08 BACR27L16 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 72 )
	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	LD22396
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	AT27510 AT29179 GH20069 LD08438 LD23088 LD38724 LD40135 LP01613 RE31274 RE32658 RE66786
Other clones	17347 214541.51 524104 524794 CK01.42A.A6 CK01.90A.C6 EK070843 EK129323 EK176856 EK246504 EK290304 EN04753 EN05938 EN09909 EP21750 RP004029981 RP004037229 RP004051525 RP004054247 RP004064090 RP004073905 RP004088975 RP004092115 RP004093900 RP004117936 RP004131770 RP004140561 RP004179874 RP004190681 RP004193174 RP004213683 RP004216257 RP004234475 RP004242729 RP004242882 RP004243814 RP004250493 RP004256447 RP004257351 RP004283230 RP004329059 RP004342562 RP004352615 RP004353796 RP004386030 RP004389074 RP004397257 RP004404540 RP004407066 RP004408984 RP004432869 RP004435033 RP004473227 RP004476244 RP004486460 RP004491377 RP004519059 RP004538414 RP004543880 RP004553140
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0000257 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 32947
Antibody Information
	polyclonal (Sevrioukov et al., 1999)
Other Information
Discoverer
	Patterson, 20th March 1928.
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: car l(1)G0447 (Peter et al., 2002) Source for merge of: car Vps33 (Sevrioukov et al., 1999)
Additional comments	"l(1)G0041" may affect "car". (Peter et al., 2002)
Other Comments
	car is required for endocytic trafficking to lysosomes. car is required for the biogenesis of pigment granules. (Akbar et al., 2009) dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology. (Kiger et al., 2003) dor is part of a protein complex which includes car. (Sevrioukov et al., 1999) Lesions in car reduce eye and ocelli pigmentation and cause excretion of pigment from the tubules. (Tearle, 1991)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_078686 NM_167664 NM_001272778 RefSeq (Proteins) • NP_523410 NP_728266 NP_001259707 DDBJ / EMBL / GenBank • AA264748 AA817218 AAD38513 AAF48972 AAL39643 AAN09503 AF133260 AGB95547 AJ426996 AW942637 AY069498 CL526132 Entrez Gene - A searchable database of RefSeq genes. • 32947 UniProtKB/Swiss-Prot • Q9Y1I2 UniProtKB/TrEMBL • A4V4S5
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Sec1-like protein (IPR001619) Vacuolar protein sorting-associated protein 33 (IPR027121) Sec1-like, domain 2 (IPR027482) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD22396
Linkouts
	BioGRID - A database of protein and genetic interactions • 59247 DroID - A comprehensive database of gene and protein interactions. • FBgn0000257 DRSC - Results from RNAi screens. • FBgn0000257 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0000257 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG12230-RB FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0000257 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 32947 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 32947 modMine - Data generated by the modENCODE project. • FBgn0000257
Synonyms & Secondary IDs ( 14 )
Reported As
Symbol Synonym	car (Falcon-Perez et al., 2007, Pulipparacharuvil et al., 2005, Akbar et al., 2007, Christensen and Cook, 2007.3.22, Harris et al., 2011, Du et al., 2011, Yamada et al., 2011, Jungreis et al., 2011, Wilkin et al., 2008, Chinchore et al., 2009, Straub et al., 2008, Anaka et al., 2008, Soukup et al., 2009, Akbar et al., 2009, Popodi, 2010.10.8, Chi et al., 2010, Popodi et al., 2010-, Yonamine et al., 2011, Japanese National Institute of Genetics, 2012.5.21, Venken et al., 2010, Kinser and Dolph, 2012) Car (Kim et al., 2010, Williamson et al., 2010) carn (Simonsen et al., 2007) CG12230 (Dorer et al., 2006, Ni et al., 2010.12.1, Keleman et al., 2009.8.5) Dm-Vps33 (Sevrioukov et al., 1999) l(1)G0447 (Schaefer et al., 1999.12.2, ) Vps33 (Littleton, 2000, Kramer, 1999.3.5, Kim et al., 2010) Vps33/carnation (Toonen and Verhage, 2003) VPS33a (Dorer et al., 2006) Vps33a (Akbar et al., 2009) Vps33A (Kim et al., 2010) Vps33p (Littleton, 2000)
Name Synonym	carnation (Falcon-Perez et al., 2007, Harris et al., 2011, Du et al., 2011, Simonsen et al., 2007, Akbar et al., 2008, Wilkin et al., 2008, Pulipparacharuvil et al., 2005, Chinchore et al., 2009, Akbar et al., 2009, Anaka et al., 2008, Chi et al., 2010, Gissen et al., 2005, Gailite et al., 2012, Kinser and Dolph, 2012) Vacuolar protein sorting protein 33
Secondary FlyBase IDs
	FBgn0027357 FBgn0040160
References ( 101 )
Generate a list of	All references relating to this gene ( 101 )
List References by type	Research paper  ( 60 ) Supplementary material  ( 6 ) Review  ( 9 ) Personal communication to FlyBase  ( 11 ) Abstract  ( 6 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 1 ) Stock list  ( 2 ) Book  ( 2 ) Website  ( 1 ) Curated genome annotation  ( 1 )
Recent research papers ( 8 )
	Bianciardi et al., 2012, Genetics 191(3): 703--723 Ribosomal DNA Organization Before and After Magnification in Drosophila melanogaster. [FBrf0218934] Gailite et al., 2012, Mol. Biol. Cell 23(3): 433--447 The phosphoinositide-associated protein Rush hour regulates endosomal trafficking in Drosophila. [FBrf0217308] Gomez et al., 2012, J. Cell Biol. 199(7): 1131--1143 Tao controls epithelial morphogenesis by promoting Fasciclin 2 endocytosis. [FBrf0220436] Kinser and Dolph, 2012, Neurobiol. Disease 46(3): 655--662 Cathepsin proteases mediate photoreceptor cell degeneration in Drosophila. [FBrf0218298] Du et al., 2011, PLoS ONE 6(9): e24168 In Vivo RNAi Screen Reveals Neddylation Genes as Novel Regulators of Hedgehog Signaling. [FBrf0215574] Harris et al., 2011, J. Cell Biol. 194(1): 77--87 Cargo sorting to lysosome-related organelles regulates siRNA-mediated gene silencing. [FBrf0214287] Yamada et al., 2011, Genes Cells 16(3): 261--272 Roles of Drosophila Deltex in Notch receptor endocytic trafficking and activation. [FBrf0213084] Yonamine et al., 2011, J. Cell Biol. 192(4): 557--567 Sphingosine kinases and their metabolites modulate endolysosomal trafficking in photoreceptors. [FBrf0213095] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...