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Gene Dmel\trn

General Information
Symbol	Dmel\trn	Species	D. melanogaster
Name	tartan	Annotation symbol	CG11280
Feature type	protein_coding_gene	FlyBase ID	FBgn0010452
Gene Model Status	Current	Stock availability	6 publicly available
Genomic Location
Chromosome (arm)	3L	Recombination map
Cytogenetic map	70A1-70A1	Sequence location	3L:13,107,371..13,111,177 [+]
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 tartan is referred to in FlyBase by the symbol Dmel\trn (CG11280, FBgn0010452). It is a protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. There is experimental evidence that it is involved in the biological process: motor neuron axon guidance; imaginal disc-derived wing morphogenesis; open tracheal system development; branch fusion, open tracheal system. 13 alleles are reported. The phenotypes of these alleles are annotated with: organ system; hypodermal muscle of larval abdomen; A1-7 transverse muscle; multicellular structure; organ system subdivision; larval abdominal segment; peripheral nervous system; thoracic segment; non-connected developing system; late extended germ band embryo. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Cysteine-rich flanking region, C-terminal; Leucine-rich repeat; Leucine-rich repeat, typical subtype; Leucine-rich repeat-containing N-terminal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of very low expression. Peak expression observed within 00-12 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Expression at high levels in the following post-embryonic organs or tissues: larval central nervous system. Expression at moderate levels in the following post-embryonic organs or tissues: adult central nervous system. Comments on Affy2 ProbeSet: ProbeSet 1639235_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of trn. Gene sequence location is 3L:13107371..13111177.
User Contributed Data
	Beta version, feedback welcome
External Summaries
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 70A1-70A1   Limits computationally determined from genome sequence between P{PZ}l(3)0422004220&P{lacW}l(3)j10B6j10B6 and P{PZ}stv00543
Experimentally Determined Cytological Location
Cytogenetic map Notes References 70A1-70A2     (Laughon, 1993.9.24) 70A1-70A2   (determined by in situ hybridisation)   (Szeged Stock Center, 1998-) 70A-70A   (determined by in situ hybridisation)   (Salzberg et al., 1997) 70A-70A   (determined by in situ hybridisation)   (Deak et al., 1997)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\trn 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 5.44 Gene model reviewed during 5.39 Gene model reviewed during 5.46 Stop-codon suppression (UGA) postulated; FBrf0216884. gene_with_stop_codon_read_through ; SO:0000697 Low-frequency RNA-Seq exon junction(s) not annotated.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) trn-RA FBtr0075890  NM_079331   3365   737 trn-RB FBtr0330075  NM_001274867   3365   751
Additional Transcript Data & Comments
Reported size (kB)	3.3 (northern blot) (Chang et al., 1993)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein trn-PA   FBpp0075624   81.9   737   7.61     NP_524055   AAF49839 trn-PB   FBpp0303108   83.5   751   7.98     NP_001261796   AGB94489
Additional Polypeptide Data & Comments
Reported size (kDa)	733 (aa) (Chang et al., 1993)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Cysteine-rich flanking region, C-terminal (IPR000483) Leucine-rich repeat (IPR001611) Leucine-rich repeat, typical subtype (IPR003591) Leucine-rich repeat-containing N-terminal (IPR000372)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA433243   AE014296 AAF49839   AE014296 AGB94489   AI114170   AW940389   AY051439 AAK92863   AY231697   BI165619   BI242886   BI356495   BI363972   BI365529   BI366790   BI369527   BI484153   BP550014   BT125725   CA806681   CO179192   CO191096   CO264136   CO266313   CO268141   CO269690   CO269823   CO274350   CO274532   CO275255   CO277347   CO283217   CO293446   CO296725   CO297963   CO298129   CO302383   CO308724   CO315458   CO315993   CO330247   CZ485705   EC056927   EC057687   EC059786   EC060265   EC072089   EC073018   EC075456   EC078300   EC080054   EC080393   EC082644   EC082722   EC197124   EC197752   EC198573   EC199914   EC204464   EC204921   EC209433   EC210853   EC211379   EC214526   EC217306   EC222850   EC224245   EC226716   EC229615   EC230917   EC231935   EC238404   EC238827   EC245946   EC250152   GH756449   GH760556   GH772578   GH787954   GH797471   GH799338   GH809399   GH814007   GH814749   GH816075   GH818262   GH831094   GH834344   GH839659   GH848996   GH852494   GH854352   GH855785   GH866978   GH872625   GH874363   GH875494   GH880734   GH882601   GH887943   GH890088   GH891992   GH898188   GH901355   GH909255   GH910027   GH916647   GH916725   GH916775   GH917149   GH918703   GH924915   GH926807   U02078 AAC47955
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9VU51 Q24250
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 4 -- 6   anlage in statu nascendi   (Fisher et al., 2012) ectoderm anlage   (Fisher et al., 2012) Comment:anlage in statu nascendi foregut anlage in statu nascendi   (Fisher et al., 2012) mesectoderm anlage   (Fisher et al., 2012) Comment:anlage in statu nascendi ventral ectoderm anlage   (Fisher et al., 2012) Comment:anlage in statu nascendi visual anlage in statu nascendi   (Fisher et al., 2012) embryonic stage 7 -- 8   clypeo-labral anlage   (Fisher et al., 2012) dorsal ectoderm   (Fisher et al., 2012) foregut anlage   (Fisher et al., 2012) hypopharynx anlage   (Fisher et al., 2012) ventral ectoderm   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) Comment:reported as ventral nerve cord anlage visual anlage   (Fisher et al., 2012) embryonic stage 9 -- 10   antennal primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium central brain primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium visual primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium dorsal head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium lateral head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium ventral head epidermis primordium   (Fisher et al., 2012) Comment:reported as procephalic ectoderm primordium clypeo-labral primordium   (Fisher et al., 2012) dorsal epidermis primordium   (Fisher et al., 2012) Comment:reported as dorsal epidermis anlage hypopharynx inclusive primordium   (Fisher et al., 2012) ventral ectoderm   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 11 -- 12   central brain primordium   (Fisher et al., 2012) clypeo-labral primordium   (Fisher et al., 2012) dorsal epidermis primordium   (Fisher et al., 2012) embryonic optic lobe primordium   (Fisher et al., 2012) labral sensory complex primordium   (Fisher et al., 2012) ventral epidermis primordium   (Fisher et al., 2012) ventral nerve cord primordium   (Fisher et al., 2012) embryonic stage 13 -- 16   embryonic brain   (Fisher et al., 2012) embryonic dorsal epidermis   (Fisher et al., 2012) embryonic epipharynx   (Fisher et al., 2012) embryonic head epidermis   (Fisher et al., 2012) embryonic hindgut   (Fisher et al., 2012) embryonic hypopharynx   (Fisher et al., 2012) embryonic rectum   (Fisher et al., 2012) embryonic ventral epidermis   (Fisher et al., 2012) ventral nerve cord   (Fisher et al., 2012) third instar larval stage   larval inner optic anlage   (Chang et al., 1993) larval outer optic anlage   (Chang et al., 1993) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Chang et al., 1993) embryonic stage 5   organism | pair rule expression pattern   (Chang et al., 1993) embryonic stage 8 -- 17   sense organ | precursor   (Chang et al., 1993) presumptive embryonic/larval peripheral nervous system | restricted   (Chang et al., 1993) embryonic stage 15 -- 16   embryonic/larval hindgut   (Chang et al., 1993) stomodeum   (Chang et al., 1993) proctodeum   (Chang et al., 1993) embryonic stage 16 -- 17   central nervous system   (Chang et al., 1993) larval stage & pupal stage   peripheral nervous system   (Chang et al., 1993) central nervous system   (Chang et al., 1993) third instar larval stage   ventral thoracic disc   (Chang et al., 1993) eye-antennal disc   (Chang et al., 1993) morphogenetic furrow | posterior to   (Chang et al., 1993) morphogenetic furrow | anterior   (Chang et al., 1993) wing disc   (Chang et al., 1993)
Additional Descriptive Data
	trn transcripts are detected at all stages of development on northern blots with a peak in 3-12hr embryos. By in situ hybridization, they are first detected at embryonic stage 5 in 8 transverse stripes, the seven most posterior of which correspond to the even pair-rule stripes. At stage 8, four longitudinal trn-expressing stripes appear in the ventrolateral region of the embryo. These coincide with the medial and lateral columns of ac expression. At this time, trn is also expressed in patches of cells on the head that will probably give rise to the brain and anterior sense organs. From stage 8 on, a complex and dynamic pattern of expression is observed involving lateral and longitudinal stripes. From stage 9 on, expression is observed in developing PNS cells including the ventral, lateral, and dorsal sense organs. During stages 15 and 16, trn expression is observed transiently in the stomodeum, proctodeum, and in a short region of the hindgut. In stages 16 and 17 expression is observed in the CNS. During larval and pupal stages, trn expression is associated with the developing CNS and PNS. In third instar larval leg, wing, and eye-antennal discs, regions of trn expression coincide with positions of developing sense organs as well as the inner and outer proliferation centers of the optic lobe. In the eye disc, trn transcripts are found in a repeating pattern at the anterior edge of the morphogenetic furrow and in a subset of developing photoreceptor cells posterior to the furrow. (Chang et al., 1993)
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference embryonic stage 14 -- 15   embryonic/larval somatic muscle | restricted   (Kurusu et al., 2008) Comment:late stage 14 to early stage 15 embryonic stage 16   embryonic/larval somatic muscle | restricted   (Kurusu et al., 2008)
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
Reporter: P{lacW}trnS002405a Stage Tissue/Position (including subcellular localization) Reference embryonic stage   embryonic/larval digestive system   (Salzberg et al., 1997) presumptive embryonic/larval peripheral nervous system | restricted   (Salzberg et al., 1997) Reporter: P{lacW}trnS064117 Stage Tissue/Position (including subcellular localization) Reference third instar larval stage   wing disc | restricted   (del Alamo Rodriguez et al., 2004)
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 high levels in the following post-embryonic organs or tissues: larval central nervous system. Expression at moderate levels in the following post-embryonic organs or tissues: adult central nervous system. [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    656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  (656.4) Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  Very high  log, scaled to maximum expression level Tissue   Expression Level Larval Central Nervous System    656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System  656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    656.4 Larval Midgut    22.5 Larval Hindgut    61.5 Larval Malpighian Tubules    19.1 Larval Fat Body    6 Larval Salivary Gland    20.2 Larval Trachea    60.825 Larval Carcass    62 Adult Head    78.5 Adult Eye    86.3 Adult Brain    209.7 Adult Thoracic-Abdominal Ganglion    107.8 Adult Crop    80.3 Adult Midgut    45.1 Adult Hindgut    90.7 Adult Malpighian Tubules    14.5 Adult Fat Body    12.3 Adult Salivary Gland    37.1 Adult Heart    7.7 Adult VirginFemale Spermatheca    18.1 Adult InseminatedFemale Spermatheca    20.6 Adult Ovary    22 Adult Testis    44.3 Adult Male Accessory Gland    12.5 Adult Carcass    21.1 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    78.5   NA  Eye    86.3   NA  Brain    209.7   656.4  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    107.8   NA  Crop    80.3   22.5  Midgut    45.1   61.5  Hindgut    90.7   19.1  Malpighian Tubules    no informative data   6  Fat Body    12.3   20.2  Salivary Gland    37.1   NA  Heart    7.7   60.825  Trachea    NA   NA  VirginFemale Spermatheca    18.1   NA  InseminatedFemale Spermatheca    20.6   NA  Ovary    22   NA  Testis    44.3   NA  Male Accessory Gland    no informative data   62  Carcass    21.1 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    56 central nervous system, larvae L3    76 central nervous system, pupae P8    39 head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering    37 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High  Linear, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (56) central nervous system, larvae L3  (76) central nervous system, pupae P8  (39) head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering  (37) carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 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    56 central nervous system, larvae L3    76 central nervous system, pupae P8    39 head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering    37 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 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    56 central nervous system, larvae L3    76 central nervous system, pupae P8    39 head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering    37 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 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    56 central nervous system, larvae L3    76 central nervous system, pupae P8    39 head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering    37 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 accessory gland, mated 4-day male    3 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Tissue   Expression Level imaginal disc, larvae L3 wandering  (56) central nervous system, larvae L3  (76) central nervous system, pupae P8  (39) head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering  (37) carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 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    56 central nervous system, larvae L3    76 central nervous system, pupae P8    39 head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering    37 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 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    56 central nervous system, larvae L3    76 central nervous system, pupae P8    39 head, virgin 1-day female    11 head, virgin 4-day female    9 head, virgin 20-day female    6 head, mated 1-day female    9 head, mated 4-day female    11 head, mated 20-day female    6 head, mated 1-day male    15 head, mated 4-day male    19 head, mated 20-day male    12 salivary gland, larvae L3 wandering    0 salivary gland, white prepupae    6 digestive system, larvae L3 wandering    2 digestive system, 1-day adult    2 digestive system, 4-day adult    2 digestive system, 20-day adult    2 fat body, larvae L3 wandering    0 fat body, white prepupae    8 fat body, pupae P8    15 carcass, larvae L3 wandering    37 carcass, 1-day adult    2 carcass, 4-day adult    2 carcass, 20-day adult    1 ovary, virgin 4-day female    2 ovary, mated 4-day female    1 testis, mated 4-day male    1 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 very high expression to a trough of very low expression. Peak expression observed within 00-12 hour embryonic 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    4 embryo 02-04hr    71 embryo 04-06hr    192 embryo 06-08hr    185 embryo 08-10hr    165 embryo 10-12hr    144 embryo 12-14hr    113 embryo 14-16hr    55 embryo 16-18hr    25 embryo 18-20hr    28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr    27 white prepupae 24hr    46 pupae 2d postWPP    34 pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    4 embryo 02-04hr  (71) embryo 04-06hr  (192) embryo 06-08hr  (185) embryo 08-10hr  (165) embryo 10-12hr  (144) embryo 12-14hr  (113) embryo 14-16hr  (55) embryo 16-18hr    25 embryo 18-20hr  (28) embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr  (27) white prepupae 24hr  (46) pupae 2d postWPP  (34) pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    4 embryo 02-04hr    71 embryo 04-06hr  (192) embryo 06-08hr  (185) embryo 08-10hr  (165) embryo 10-12hr  (144) embryo 12-14hr  (113) embryo 14-16hr    55 embryo 16-18hr    25 embryo 18-20hr    28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr    27 white prepupae 24hr    46 pupae 2d postWPP    34 pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 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    4 embryo 02-04hr    71 embryo 04-06hr    192 embryo 06-08hr    185 embryo 08-10hr    165 embryo 10-12hr    144 embryo 12-14hr    113 embryo 14-16hr    55 embryo 16-18hr    25 embryo 18-20hr    28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr    27 white prepupae 24hr    46 pupae 2d postWPP    34 pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 Expression Level Scale  Extremely high  log, scaled to maximum expression level Developmental Stage   Expression Level embryo 00-02hr    4 embryo 02-04hr    71 embryo 04-06hr    192 embryo 06-08hr    185 embryo 08-10hr    165 embryo 10-12hr    144 embryo 12-14hr    113 embryo 14-16hr    55 embryo 16-18hr    25 embryo 18-20hr    28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr    27 white prepupae 24hr    46 pupae 2d postWPP    34 pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 Expression Level Scale  Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    4 embryo 02-04hr  (71) embryo 04-06hr  (192) embryo 06-08hr  (185) embryo 08-10hr  (165) embryo 10-12hr  (144) embryo 12-14hr  (113) embryo 14-16hr  (55) embryo 16-18hr    25 embryo 18-20hr  28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr  27 white prepupae 24hr  (46) pupae 2d postWPP  (34) pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    4 embryo 02-04hr    71 embryo 04-06hr  (192) embryo 06-08hr  (185) embryo 08-10hr  (165) embryo 10-12hr  (144) embryo 12-14hr  113 embryo 14-16hr    55 embryo 16-18hr    25 embryo 18-20hr    28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr    27 white prepupae 24hr    46 pupae 2d postWPP    34 pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 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    4 embryo 02-04hr    71 embryo 04-06hr    192 embryo 06-08hr    185 embryo 08-10hr    165 embryo 10-12hr    144 embryo 12-14hr    113 embryo 14-16hr    55 embryo 16-18hr    25 embryo 18-20hr    28 embryo 20-22hr    13 embryo 22-24hr    16 larva L1    10 larva L2    6 larva L3 12hr old    3 larva L3 puffstage 1-2    7 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    19 white prepupae new    23 white prepupae 12hr    27 white prepupae 24hr    46 pupae 2d postWPP    34 pupae 3d postWPP    10 pupae 4d postWPP    6 adult male 01day    4 adult male 05day    4 adult male 30day    4 adult female 01day    3 adult female 05day    2 adult female 30day    1 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+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 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+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 Expression Level Scale  Extremely high  log, scaled to maximum expression level Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Cell Line   Expression Level Schneider line 2 S2R+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 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+    0 Schneider line 2 Sg4    0 embryonic 1182-4H    0 embryonic GM2    0 embryonic Kc167    0 embryonic S1    0 embryonic S3    0 leg disc CME L1    0 wing disc CME-W2    0 wing disc ML-DmD8    1 wing disc ML-DmD9    0 wing disc ML-DmD16-c3    0 wing disc ML-DmD21    0 wing disc ML-DmD32    0 haltere disc ML-DmD17-c3    0 eye-antennal disc ML-DmD11    1 antennal disc ML-DmD20-c5    0 mixed discs ML-DmD4-c1    0 CNS ML-DmBG1-c1    0 CNS ML-DmBG2-c2    1 tumorous blood cells mbn2    0 ovary fGS/OSS    3 ovary OSC    0 ovary OSS    4 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    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate  Linear, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 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    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Extremely high  log, scaled to maximum expression level Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate  log, scaled to Moderate expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 Expression Level Scale  Very low   Low   Moderate   Moderately high  log, scaled to High expression Treatment   Expression Level extended cold, 4-day adult    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 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    9 cold shock, 4-day adult    5 heat shock, 4-day adult    3 Cadmium 50 mM 6 hrs, larvae L3    5 Cadmium 50 mM 12 hrs, larvae L3    7 Cadmium 50 mM 48 hrs, 4-day adult    5 Cadmium 100 mM 48 hrs, 4-day adult    4 Copper 0.5 mM 12 hrs, larvae L3    5 Copper 15 mM 48 hrs, 4-day adult    4 Zinc 5 mM 12 hrs, larvae L3    5 Zinc 4.5 mM 48 hrs, 4-day adult    5 Ethanol 2.5% 3 hrs, larvae L3    2 Ethanol 5% 3 hrs, larvae L3    4 Ethanol 10% 3 hrs, larvae L3    4 Caffeine 1.5 mg/ml 4 hrs, larvae L3    6 Caffeine 2.5 mg/ml 48 hrs, 4-day adult    3 Caffeine 25 mg/ml 48 hrs, 4-day adult    6 Paraquat 5 mM 48 hrs, 4-day adult    3 Paraquat 10 mM 48 hrs, 4-day adult    3 Rotenone 2 μg 12 hrs, larvae L3    4 Rotenone 8 μg 12 hrs, larvae L3    3 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_11 mE1_20_mRNA_expression_cluster_04
External Data & Images
Linkouts	BDGP expression data • GH10871 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0010452 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG11280-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for trn Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | adult stage | recessive trnS002405a lethal | embryonic stage | recessive trn28.4 trnS064117 lethal | recessive trnS002405a trnS064117 partially lethal - majority die | recessive trnS002405a viable, with Scer\GAL4pnr-MD237 trnGD2450 Other Phenotypes Allele neuroanatomy defective, with Scer\GAL4how-24B trnGS10885 neuroanatomy defective, with Scer\GAL4l(3)H94-H94 trnGS10885 neuroanatomy defective, with Scer\GAL4tey-5053A trnGS10885 neuroanatomy defective | embryonic stage (with Df(3L)trnΔ17) trn28.4 neuroanatomy defective | recessive trn28.4 trnS064117 neuroanatomy defective | somatic clone trn28.4 Phenotype manifest in Allele A1-7 dorsal transverse muscle 1 (with In(3LR)C190) trn28.4 A1-7 lateral transverse muscle 1 (with In(3LR)C190) trn28.4 A1-7 lateral transverse muscle 2 (with In(3LR)C190) trn28.4 A1-7 lateral transverse muscle 3 (with In(3LR)C190) trn28.4 A1-7 lateral transverse muscle 4 (with In(3LR)C190) trn28.4 antennal lobe projection neuron lPN | somatic clone trn28.4 dendrite | somatic clone trn28.4 dorsal trunk primordium trn28.4 embryonic/larval somatic muscle trn28.4 intersegmental nerve trn28.4 intersegmental nerve branch ISNb of A1-7 trn28.4 trnS064117 intersegmental nerve branch ISNb of A1-7, with Scer\GAL4how-24B trnGS10885 intersegmental nerve branch ISNb of A1-7, with Scer\GAL4l(3)H94-H94 trnGS10885 intersegmental nerve branch ISNb of A1-7, with Scer\GAL4tey-5053A trnGS10885 lateral trunk primordium trn28.4 lch5 neuron | embryonic stage trnS002405a trnS064117 motor neuron | embryonic stage (with Df(3L)trnΔ17) trn28.4 motor neuron | larval stage, with Scer\GAL4how-24B trnGS10885 motor neuron | larval stage, with Scer\GAL4l(3)H94-H94 trnGS10885 motor neuron | larval stage, with Scer\GAL4tey-5053A trnGS10885 presumptive embryonic/larval peripheral nervous system trn28.4 pretarsus | somatic clone trn28.4 segmental nerve branch SNa of A1-7 trn28.4 trnS064117 ventral thoracic disc, with Scer\GAL4ptc-559.1 trnGS10885 wing disc, with Scer\GAL4Act5C.PP trnScer\UAS.cMa wing disc | ventral compartment, with Scer\GAL4Act5C.PP trnScer\UAS.cMa
Classical Alleles ( 7 )
For All Classical Alleles Show
Allele of trn Class Mutagen Stocks Known lesion trnf03162 piggyBac transposase 1 -- trnGS10885 P-element activity 1 -- trnS064117 Delta2-3 P-element activity 1 -- trn28.4 Delta2-3 0 Yes trnS002405a P-element activity 0 -- trnΔ2.9 P-element activity 0 Yes trnΔ73 0 Yes
Alleles Carried on Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Allele of trn Class Mutagen Stocks Known lesion trnGD2450 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes trnHM05011 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes trnKK104688 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes trncMa in vitro construct 0 Yes trnScer\UAS.cMa in vitro construct - regulatory fusion 0 Yes trnΔC.Scer\UAS.T:Hsap\MYC in vitro construct - deletion in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(3L)BSC12 (Deal and Cook, 2002.1.22) Df(3L)Exel6261 (Ryder, 2004.4.26) Df(3L)Ly (Szeged Stock Center, 1998-) Df(3L)trnΔ17 (Kohsaka and Nose, 2009, Sakurai et al., 2007)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD2450} NA P{KK104688} NA P{TRiP.HM05011} NA P{UAS-trn.M} NA P{UAS-trn.ΔC.MYC} NA characterization construct P{UAS-capsEdtrnId} NA P{UAS-trnEdCcpsId} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{PTT-GB}CB05114 NA PBac{WH}trnf03162 NA insertion of enhancer trap P{lacW}70A1-2 No P{lacW}trnS002405a No P{lacW}trnS064117 No insertion of mobile activating element P{GSV6}trnGS10885 NA
Gene Ontology: Function, Process & Cellular Component ( 7 unique terms )
Terms Based on Experimental Evidence ( 4 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
branch fusion, open tracheal system inferred from mutant phenotype (Krause et al., 2006) imaginal disc-derived wing morphogenesis inferred from mutant phenotype (Carreira et al., 2011) motor neuron axon guidance inferred from mutant phenotype (Kurusu et al., 2008) open tracheal system development inferred from mutant phenotype (Krause et al., 2003)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
cell adhesion non-traceable author statement (Krause et al., 2003, de Celis, 2003) cell migration traceable author statement (Tyler and Baker, 2003)
Cellular Component
CV term Evidence References
plasma membrane non-traceable author statement (Laughon, 1993.9.24)
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
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions trn allele Gene References trn28.4 Bx (Milan et al., 2001) trnΔ2.9 caps (Milan et al., 2001) Chi (Milan et al., 2001) unspecified caps (Krause et al., 2006, Milan et al., 2002)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 64836 DroID - A comprehensive database of gene and protein interactions. • FBgn0010452 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39491
Orthologs
OrthoDB Orthologs (30) - 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 EOG66DMN8 Dipteran inclusive ortholog search EOG6SQX4V Insect inclusive ortholog search EOG6CFZ4X Arthropod inclusive ortholog search EOG65DV52 Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (EOG66DMN8)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\trn     Drosophila simulans   Dsim\GD14431 Y   Drosophila sechellia   Dsec\GM25399 Y   Drosophila erecta   Dere\GG15627 Y   Drosophila yakuba   Dyak\GE21954 Y   Drosophila ananassae   Dana\GF24031 Y   Drosophila pseudoobscura pseudoobscura   Dpse\GA10887 Y   Drosophila persimilis   Dper\GL24567     Drosophila willistoni   Dwil\GK17431 Y   Drosophila virilis   Dvir\GJ13467 Y   Drosophila mojavensis   Dmoj\GI11760 Y   Drosophila grimshawi   Dgri\GH17150 Y
Orthologs in non-Drosophila Dipterans (EOG6SQX4V)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Aedes aegypti Yellow fever mosquito  Aaeg\AAEL013159 Y Anopheles gambiae Malaria mosquito  Agam\AGAP011378 Y Culex quinquefasciatus Southern house mosquito  Cqui\CPIJ007672 Y
Orthologs in non-Dipteran Insects (EOG6CFZ4X)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Apis mellifera Western honey bee  Amel\GB46296 Y Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG013419 Y Acromyrmex echinatior Panamanian leafcutter ant  Aech\AECH22748 Y Atta cephalotes Leafcutter ant  Acep\ACEP27429 Y Camponotus floridanus Florida carpenter ant  Cflo\CFLO21018 Y Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL12199 Y Linepithema humile Argentine ant  Lhum\LH16394 Y Pogonomyrmex barbatus Red harvester ant  Pbar\PB14689 Y Solenopsis invicta Red fire ant  Sinv\SINV21736 Y Acyrthosiphon pisum Pea aphid  Apim\ACYPI007455 Y Bombyx mori Silkmoth  Bmor\BGIBMGA003086 Y Pediculus humanus Human body louse  Phum\PHUM136240 Y Tribolium castaneum Red flour beetle  Tcas\TC014658 Y
Orthologs in non-Insect Arthropods (EOG65DV52)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Daphnia pulex Water flea  Dpux\Bcap31 Y Ixodes scapularis Deer tick  Isca\ISCW021508 Y
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (10) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila simulans Dsim\GD14431 Drosophila sechellia Dsec\GM25399 Drosophila erecta Dere\GG15627 Drosophila yakuba Dyak\GE21954 Drosophila ananassae Dana\GF24031 Drosophila pseudoobscura pseudoobscura Dpse\GA10887 Drosophila willistoni Dwil\GK17431 Drosophila virilis Dvir\GJ13467 Drosophila mojavensis Dmoj\GI11760 Drosophila grimshawi Dgri\GH17150
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	28525 y1 v1; P{TRiP.HM05011}attP2 4550 y1 w67c23; P{lacW}trnS064117/TM3, Sb1 Ser1
Harvard	- PBac{WH}trnf03162
Kyoto	202895 y1 w67c23; P{GSV6}trnGS10885/TM3, Sb1 Ser1
VDRC	v107883 P{KK104688}VIE-260B v5242 w1118; P{GD2450}v5242
Genomic Clones ( 1 )
	BACR13C22 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 105 )
	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	GH10871
Other clones	DPiM_GH10871 RT10501
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RE05549 RE40370 RE42662 RE48975 RE50875 RE52402 RE55736 RE67210
Other clones	1778 5170 12377 13036 15809 35262 43650 53533 53666 55080 55926 73587 77150 122848 158376 159533 167311 172557 174144 191951 AA433243 CK01.11A.G6 CK01.16B.D2 CK01.17B.G10 CK01.29D.F2 CK01.40C.E1 CK01.40C.F1 CK01.74D.G3 CK01.118D.G10 CK01.125B.G1 CK01.128A.H9 CK01.129A.F4 CK01.141A.F7 EK050718 EK058726 EK090257 EK095541 EK096019 EK113853 EK114361 EK116924 EK123911 EK137606 EK146013 EK162622 EK171021 EK171544 EK184037 EK202932 EK214805 EK259209 EK261533 EK263306 EK294815 ESG014c.E21_C03 FGM104G09 RP003018500 RP003048552 RP003060468 RP003068502 RP003068581 RP003080313 RP003150767 RP003154335 RP003159050 RP003173244 RP003200007 RP003204443 RP003207429 RP003221377 RP003246671 RP003248728 RP003249339 RP003254395 RP003259889 RP003281485 RP003290458 RP003320690 RP003335385 RP003351667 RP003357166 RP003396074 RP003422971 RP003434826 RP003444641 RP003455546 RP003473776 RP003528072 RP003540783 RP003577072 RP003597722 RP003599793 RP003614689 RP003656830
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0010452 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39491
Antibody Information
	polyclonal (Mao et al., 2008)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: trn anon-EST:fe2B1 (Bayraktaroglu, 2000.11.2)
Additional comments
Other Comments
	The extracellular domain of the trn protein is sufficient for its role in the formation of tracheal branches. (Krause et al., 2006) trn protein confers affinity for dorsal cells during wing development. (Milan et al., 2001) Candidate gene for quantitative trait (QTL) locus determining bristle number. (Nuzhdin et al., 1999) The primary target genes of Egfr are pnt, vnd and Fas3, these are induced in different ectodermal domains. Secondary target genes oc, argos and trn are activated by pnt in response to Egfr signalling. The proper induction of these genes requires the concomitant inactivation of aop, mediated by Egfr signalling. (Gabay et al., 1996) trn is required for cell surface interactions important for normal organization of epidermal and subepidermal structures. Expression of the trn pair rule stripes requires ftz and ems. (Chang et al., 1993)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079331 NM_001274867 RefSeq (Proteins) • NP_524055 NP_001261796 DDBJ / EMBL / GenBank • AA433243 AAC47955 AAF49839 AAK92863 AGB94489 AI114170 AW940389 AY051439 CZ485705 U02078 Entrez Gene - A searchable database of RefSeq genes. • 39491 UniProtKB/TrEMBL • Q9VU51 Q24250
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Cysteine-rich flanking region, C-terminal (IPR000483) Leucine-rich repeat (IPR001611) Leucine-rich repeat, typical subtype (IPR003591) Leucine-rich repeat-containing N-terminal (IPR000372) BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • GH10871
Linkouts
	BioGRID - A database of protein and genetic interactions • 64836 DroID - A comprehensive database of gene and protein interactions. • FBgn0010452 DRSC - Results from RNAi screens. • FBgn0010452 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0010452 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG11280-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0010452 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39491 Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /genebrief/tartan.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39491 modMine - Data generated by the modENCODE project. • FBgn0010452
Synonyms & Secondary IDs ( 11 )
Reported As
Symbol Synonym	0024/05 (Deak et al., 1997) 0641/17 (Deak et al., 1997) anon-EST:fe2B1   CG11280 (Metta et al., 2006, Quinones-Coello, 2007, Keleman et al., 2009.8.5, Perkins et al., 2009, Siddiqui et al., 2012) CT31487 (Hynes and Zhao, 2000) trn (Hong et al., 2009, Krause et al., 2006, Mao et al., 2008, Buszczak et al., 2007, Quinones-Coello, 2007, Milan et al., 2005, Anderson and Pick, 2008, Bejarano et al., 2008, Bugga et al., 2009, Jungreis et al., 2011, Firth and Baker, 2007, Sakurai et al., 2007, Maybeck and Röper, 2009, Ayroles et al., 2009, Kohsaka and Nose, 2009, Immonen and Ritchie, 2012, Zúñiga et al., 2009, Chan et al., 2011, Hong et al., 2009, Kazemian et al., 2010, Reis et al., 2010, Carreira et al., 2011) unnamed (Schmid and Tautz, 1997)
Name Synonym	anon-fast-evolving-2B1   Tartan (Hong et al., 2009, Krause et al., 2006, Herranz and Milan, 2006, Becam et al., 2011, Bugga et al., 2009, Sakurai et al., 2007, Wayburn and Volk, 2009) tartan (Holley, 2006, Kurusu et al., 2008, Stathopoulos and Levine, 2005, Mao et al., 2008, Milan et al., 2005, Anderson and Pick, 2008, Bellotto et al., 2002, Firth and Baker, 2007, Maybeck and Röper, 2009, Rehmsmeier et al., 2004, Kohsaka and Nose, 2009, Jordan et al., 2007) TARTAN (Michaut et al., 2011)
Secondary FlyBase IDs
	FBgn0025231
References ( 84 )
Generate a list of	All references relating to this gene ( 84 )
List References by type	Research paper  ( 43 ) Supplementary material  ( 8 ) Review  ( 9 ) Personal communication to FlyBase  ( 10 ) Abstract  ( 6 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 2 ) Stock list  ( 1 ) Website  ( 1 ) Curated genome annotation  ( 2 )
Recent research papers ( 8 )
	Fisher et al., 2012, Proc. Natl. Acad. Sci. U.S.A. 109(52): 21330--21335 DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila. [FBrf0220344] Immonen and Ritchie, 2012, Proc. Biol. Sci. 279(1732): 1359--1365 The genomic response to courtship song stimulation in female Drosophila melanogaster. [FBrf0217554] Siddiqui et al., 2012, Genome Biol. 13(2): R11 Genome-wide analysis of the maternal-to-zygotic transition in Drosophila primordial germ cells. [FBrf0218847] Baycin-Hizal et al., 2011, J. Proteome Res. 10(6): 2777--2784 GlycoFly: A Database of Drosophila N-linked Glycoproteins Identified Using SPEG-MS Techniques. [FBrf0213834] Becam et al., 2011, Development 138(17): 3781--3789 Notch-mediated repression of bantam miRNA contributes to boundary formation in the Drosophila wing. [FBrf0214603] Carreira et al., 2011, BMC Dev. Biol. 11: 32 Genetic basis of wing morphogenesis in Drosophila: sexual dimorphism and non-allometric effects of shape variation. [FBrf0214273] Chan et al., 2011, Hum. Mol. Genet. 20(9): 1738--1750 Expanded polyglutamine domain possesses nuclear export activity which modulates subcellular localization and toxicity of polyQ disease protein via exportin-1. [FBrf0214367] Michaut et al., 2011, Dev. Growth Differ. 53(9): 982--993 Analyzing the function of a hox gene: An evolutionary approach. [FBrf0216990] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...