• Home
• Tools
  • Tools Overview
  • Query Tools

    
    • QuickSearch
    • QueryBuilder
    • TermLink
    • CytoSearch
    • Interactions Browser
    • ImageBrowse
    • Find A Person
    • Google™ FlyBase
  • Genomic/Map Tools

    
    • BLAST
    • GBrowse
    • CytoSearch
    • Aberrations Maps
    • Chromosome Maps
    • Coordinates Converter
  • Retrieve/Convert

    
    • Batch Download
    • Coordinates Converter
    • ID Converter
  • Data Submission

    
    • Fast-Track Your Paper
    • Submit Personal Comm
    • Add A New Person
    • Update Person Info
  • People

    
    • Find A Person
    • Add A New Person
    • Update Person Info
• Files
  • Files Overview
  • Downloads:
  • Precomputed files
  • Archived data
  • Releases (FTP)
  • Genomes (FTP)
  • AAA data (FTP)
  • Lists:
  • Transposons (Dmel)
  • Transposons (other)
  • Vectors & Constructs
  • Anatomical Terms
  • Map Conversion
• Species
  • Phylogeny
  • Sequenced Species
  • Synteny Table
  • Color Illustrations
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All Resources
  • Model Organisms
  • Stock Collections
  • Other links:
  • BDGP
  • DGRC
  • FlyExpress
  • Interactive Fly
  • modENCODE
  • Textpresso for Fly
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • FlyBase Guides
  • Video Tutorials
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Contact FlyBase
• Archives
  • Prior Release
  • Other Archives
  • Coordinate Converter

Gene Dmel\pip

General Information
Symbol	Dmel\pip	Species	D. melanogaster
Name	pipe	Annotation symbol	CG9614
Feature type	protein_coding_gene	FlyBase ID	FBgn0003089
Gene Model Status	Current	Stock availability	19 publicly available
Also Known As	pipe
Genomic Location
Chromosome (arm)	3L	Recombination map	3-47
Cytogenetic map	76A5-76A6	Sequence location	3L:19,291,630..19,330,699 [-]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene pipe is referred to in FlyBase by the symbol Dmel\pip (CG9614, FBgn0003089). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: sulfotransferase activity. There is experimental evidence that it is involved in the biological process: embryonic pattern specification; regulation of multicellular organism growth; protein processing; dorsal/ventral axis specification. 36 alleles are reported. The phenotypes of these alleles are annotated with: embryonic/first instar larval cuticle; presumptive embryonic salivary gland; embryonic epidermis. It has 11 annotated transcripts and 11 annotated polypeptides. Protein features are: Heparan sulphate 2-O-sulfotransferase; Sulfotransferase. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of extremely low expression. Peak expression observed within 06-18 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression at high levels in the following post-embryonic organs or tissues: larval salivary gland. Expression at moderate levels in the following post-embryonic organs or tissues: larval hindgut. Gene sequence location is 3L:19291630..19330699.
External Summaries
Phenotypic Description from the Red Book (Lindsley & Zimm 1992)
Gene/Allele symbols may differ from current usage	pip: pipe Maternal-effect lethal; homozygous females are sterile. As in the mutant dl, lethal embryos produced by pip females lack ventral and lateral elements; all cells differentiate like the dorsal-most cells of normal embryos (Anderson and Nusslein-Volhard, 1984). Dorsalization is also observed in the pattern of ftz stripes in pip embryos (Carroll et al., 1987). Embryos are not rescued by injection of wild-type cytoplasm; injection of cytoplasm from ventralized embryos of Tl5/+ females, however, partially restores the pip+ embryonic pattern, resulting in differentiation of filzkorper in 25-40% of the treated pip embryos (Anderson et al., 1985).
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2012_01	Sequence features HFA11382 BKN31537
FB2011_10	References Knowles-Barley, 2011.8.24, BrainTrap expression curation.
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 76A5-76A6   Limits computationally determined from genome sequence between P{EP}MESR6EP3142 and P{lacW}l(3)L3809L3809
Experimentally Determined Cytological Location
Cytogenetic map Notes References 76B-76B     (Sen, 1998.10.27)
Experimentally Determined Recombination Data
Location	3-47 (Tearle and Nusslein-Volhard, 1987, )
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\pip 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 5.43
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) pip-RA FBtr0075003  NM_079434   1807   413 pip-RC FBtr0075004  NM_168793   1387   403 pip-RD FBtr0075005  NM_176355   1426   418 pip-RF FBtr0075007  NM_176356   1432   397 pip-RG FBtr0075008  NM_176354   1393   407 pip-RH FBtr0075009  NM_176353   1387   405 pip-RI FBtr0075010  NM_176352   1246   358 pip-RJ FBtr0075011  NM_176351   1481   401 pip-RK FBtr0075012  NM_176359   1390   406 pip-RL FBtr0075013  NM_176358   1714   514 pip-RM FBtr0300340  NM_001169996   3053   292
Additional Transcript Data & Comments
Reported size (kB)	1.7, 1.5 (northern blot) (Sen et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein pip-PA   FBpp0074770   48.1   413   8.76     NP_524158   AAF49170 pip-PC   FBpp0074771   48.2   403   9.76     NP_730402   AAN11662 pip-PD   FBpp0074772   48.7   418   8.34     NP_788533   AAO41229 pip-PF   FBpp0074774   46.7   397   7.99     NP_788534   AAO41230 pip-PG   FBpp0074775   48.2   407   9.19     NP_788532   AAO41228 pip-PH   FBpp0074776   47.8   405   9.70     NP_788531   AAO41227 pip-PI   FBpp0074777   41.9   358   9.85     NP_788530   AAO41226 pip-PJ   FBpp0074778   47.7   401   10.07     NP_788529   AAO41225 pip-PK   FBpp0074779   47.8   406   8.83     NP_788537   AAO41233 pip-PL   FBpp0074780   60.3   514   7.30     NP_788536   AAO41232 pip-PM   FBpp0289569   34.2   292   9.74     NP_001163467   ACZ94738
Additional Polypeptide Data & Comments
Reported size (kDa)	403, 392 (aa) (Sen et al., 1998)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Heparan sulphate 2-O-sulfotransferase (IPR007734) Sulfotransferase (IPR005331)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA140740   AA141206   AA438376   AE014296 AAF49170   AE014296 AAN11662   AE014296 AAO41225   AE014296 AAO41226   AE014296 AAO41227   AE014296 AAO41228   AE014296 AAO41229   AE014296 AAO41230   AE014296 AAO41232   AE014296 AAO41233   AE014296 ACZ94738   AF102135   AF102136 AAD04925   AF263993 AAK56855   BI166353   BI167041   BI167441   BI167445   BI213083   BI228699   BI231620   BI234342   BI235741   BI239372   BI370212   BT010278 AAQ23596   BT058012   BT125816   BT125857   BT126134   BT126392   CO178380   CO267160   CO272687   CO273793   CO283246   CO285737   CO293743   CO294906   CO303427   CO305192   CO306540   CZ468666   CZ470218   CZ470503   CZ470504   CZ470955   CZ478208   CZ480838   EC051729   EC052714   EC056232   EC060529   EC067217   EC069933   EC086768   EC088572   EC088713   EC199501   EC201573   EC205762   EC217181   EC221839   EC230216   EC243756   EC248976   EC250302   EC253517   EC259992   EL885328   EL885329   GH941228   GH941944   GH942189   GH944443   GH944787   GH945338   GH946403   GH946508   GH947200   GH947849   GH948976   GH949896   GH950300   GH950525   GH951096   GH952767   GH952880   GH953247   GH954479   GH954974   GH955584   GH957875   GH958425   GH960790   GH961380   GH963121   GH965899   GH968147   GH971582   GH972812   GH975198   GH976562   GH977318   GH978473   GH979958   GH980331   GH980793   GH980912   GH981578   GH982375   GH982620   GH983052   GH983190   GH983977   GH984063
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q86BJ3 E1JI38
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 13 -- 16   presumptive embryonic salivary gland   (Sergeev et al., 2001) embryonic stage 16   embryonic/larval salivary gland   (Sen et al., 2000) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage     (Sen et al., 1998) embryonic stage 12 -- 17   embryonic/larval pharynx | anterior   (Sen et al., 1998) embryonic/larval salivary gland   (Sen et al., 1998) embryonic stage 14 -- 17   gonad | presumptive   (Sen et al., 1998) adult stageoogenesis stage S9 -- S10   follicle cell | ventral   (Sen et al., 1998) oogenesis     (Sen et al., 1998)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
epitope tag Stage Tissue/Position (including subcellular localization) Reference oogenesis   follicle cell   • Golgi apparatus (Sen et al., 2000) immuno-electron microscopy Stage Tissue/Position (including subcellular localization) Reference oogenesis   follicle cell   • Golgi apparatus (Sen et al., 2000)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. modENCODE Temporal Expression Data for FBgn0003089    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0003089 Very low expression bin max Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of extremely low expression. Peak expression observed within 06-18 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No expression (0 - 0)   Extremely low expression (1 - 10)   Very low expression (11 - 100)   Low expression (101 - 400)   Moderate expression (401 - 1400)   Moderately high expression (1401 - 4000)   High expression (4001 - 10000)   Very high expression (10001 - 100000)   Extremely high expression (100001 - 2000000) Linear, scaled to maximum FBgn0003089 expression level Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr    1512 embryo 10-12hr    2230 embryo 12-14hr    2141 embryo 14-16hr    1423 embryo 16-18hr    1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr  (604) embryo 08-10hr  (1512) embryo 10-12hr  (2230) embryo 12-14hr  (2141) embryo 14-16hr  (1423) embryo 16-18hr  (1591) embryo 18-20hr  (735) embryo 20-22hr  (196) embryo 22-24hr  (281) larva L1  (490) larva L2  (869) larva L3 12hr old  (400) larva L3 puffstage 1-2  (129) larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr  (123) pupae 2d postWPP  (1099) pupae 3d postWPP  (704) pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr  (1512) embryo 10-12hr  (2230) embryo 12-14hr  (2141) embryo 14-16hr  1423 embryo 16-18hr  (1591) embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr    1512 embryo 10-12hr    2230 embryo 12-14hr    2141 embryo 14-16hr    1423 embryo 16-18hr    1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr    1512 embryo 10-12hr    2230 embryo 12-14hr    2141 embryo 14-16hr    1423 embryo 16-18hr    1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0003089 expression level Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr    1512 embryo 10-12hr    2230 embryo 12-14hr    2141 embryo 14-16hr    1423 embryo 16-18hr    1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr  (604) embryo 08-10hr  (1512) embryo 10-12hr  (2230) embryo 12-14hr  (2141) embryo 14-16hr  (1423) embryo 16-18hr  (1591) embryo 18-20hr  (735) embryo 20-22hr  (196) embryo 22-24hr  (281) larva L1  (490) larva L2  (869) larva L3 12hr old  (400) larva L3 puffstage 1-2  129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr  123 pupae 2d postWPP  (1099) pupae 3d postWPP  (704) pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr  1512 embryo 10-12hr  2230 embryo 12-14hr  2141 embryo 14-16hr  1423 embryo 16-18hr  1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr    1512 embryo 10-12hr    2230 embryo 12-14hr    2141 embryo 14-16hr    1423 embryo 16-18hr    1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    8 embryo 02-04hr    30 embryo 04-06hr    50 embryo 06-08hr    604 embryo 08-10hr    1512 embryo 10-12hr    2230 embryo 12-14hr    2141 embryo 14-16hr    1423 embryo 16-18hr    1591 embryo 18-20hr    735 embryo 20-22hr    196 embryo 22-24hr    281 larva L1    490 larva L2    869 larva L3 12hr old    400 larva L3 puffstage 1-2    129 larva L3 puffstage 3-6    84 larva L3 puffstage 7-9    85 white prepupae new    96 white prepupae 12hr    20 white prepupae 24hr    123 pupae 2d postWPP    1099 pupae 3d postWPP    704 pupae 4d postWPP    76 adult male 01day    44 adult male 05day    6 adult male 30day    6 adult female 01day    37 adult female 05day    38 adult female 30day    28 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     FlyAtlas Anatomical Expression Data for FBgn0003089    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0003089 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression at high levels in the following post-embryonic organs or tissues: larval salivary gland. Expression at moderate levels in the following post-embryonic organs or tissues: larval hindgut. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (1000 - 25000) Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut no informative data Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland no informative data Larval Trachea no informative data 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 no informative data Adult Male Accessory Gland     Adult Carcass     modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_29
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003089 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9614-RK;CG9614-RI;CG9614-RG;CG9614-RC;CG9614-RA;CG9614-RE;CG9614-RJ;CG9614-RH;CG9614-RF;CG9614-RD FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for pip Stages(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele semi-lethal (with Df(3L)pipeA13) pip3 pipC14 viable pipPL00393 viable, with Scer\GAL4pnr-MD237 pipGD4622 Sterility Allele fertile pipPL00393 Other Phenotypes Allele developmental rate defective (with Df(3L)pipeA13) pip3 pipC14 small body (with Df(3L)pipeA13) pip3 pipC14 Phenotype manifest in Allele denticle field | maternal effect | somatic clone pip2 embryo | maternal effect | somatic clone pip2 embryo | ventral pipunspecified embryonic/first instar larval cuticle pip1 pip2 embryonic/first instar larval cuticle | maternal effect pip1 embryonic/first instar larval cuticle | maternal effect (with Df(3L)pipeA13) pip7 embryonic/first instar larval cuticle | maternal effect (with pip2) pip7 embryonic/first instar larval cuticle | maternal effect (with pip7) pip2 embryonic epidermis pipunspecified embryonic epidermis | maternal effect | somatic clone pip2 embryonic epidermis | ventral pip1 presumptive embryonic salivary gland pip3 pipC14
Classical Alleles ( 29 )
For All Classical Alleles Show
Allele of pip Class Mutagen Stocks Known lesion pip1 ethyl methanesulfonate 2 Yes pip2 ethyl methanesulfonate 2 Yes pipc02817 1 -- pipc03473 piggyBac transposase 1 -- pipc05743 piggyBac transposase 1 -- pipc06211 piggyBac transposase 1 -- pipe00311 1 -- pipe00322 piggyBac transposase 1 -- pipe03073 piggyBac transposase 1 -- pipMB04958 1 -- pipMB07037 1 -- pipMI01309 1 -- pipPL00393 P-element activity 1 -- pip11 ethyl methanesulfonate 0 Yes pip12 ethyl methanesulfonate 0 Yes pip236 0 -- pip286 0 -- pip3 ethyl methanesulfonate 0 Yes pip4 ethyl methanesulfonate 0 Yes pip5 ethyl methanesulfonate 0 Yes pip6 ethyl methanesulfonate 0 Yes pip7 ethyl methanesulfonate 0 Yes pip8 ethyl methanesulfonate 0 Yes pip9 ethyl methanesulfonate 0 Yes pipc06734 piggyBac transposase 0 -- pipC14 P-element activity 0 Yes pipCPTI002126 piggyBac transposase 0 Yes pipunspecified 0 -- pipzh1 P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Allele of pip Class Mutagen Stocks Known lesion pipGD4622 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes pipHMS01288 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes pipKK111537 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes piphs.PS in vitro construct - regulatory fusion 0 Yes pipScer\UAS.T:Avic\GFP-m6 in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes pipScer\UAS.T:Zzzz\FLAG in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes pipST2.Scer\UAS in vitro construct - regulatory fusion 0 Yes
Aneuploid Aberrations
Disrupted in	Df(3L)A23 (Cooper et al., 2010) Df(3L)BSC20 (Deal and Cook, 2002.8.20, Cooper et al., 2010) Df(3L)BSC417 (Cooper et al., 2010) Df(3L)ED228 (Cooper et al., 2010) Df(3L)ED4799 (Cooper et al., 2010) Df(3L)Exel9046 (Cooper et al., 2010) Df(3L)kto2 (Sen et al., 1998, Cooper et al., 2010) Df(3L)pipeA13 (Sen et al., 1998, Cooper et al., 2010)
Not disrupted in	Df(3L)25-21 (Cooper et al., 2010) Df(3L)ash1A16 (Sen et al., 1998, Cooper et al., 2010) Df(3L)BSC2 (Cooper et al., 2010) Df(3L)BSC445 (Cooper et al., 2010) Df(3L)ED4858 (Cooper et al., 2010) Df(3L)Exel6135 (Cooper et al., 2010) Df(3L)Exel9007 (Cooper et al., 2010) Df(3L)Exel9008 (Cooper et al., 2010) Df(3L)Exel9009 (Cooper et al., 2010) Df(3L)Exel9011 (Cooper et al., 2010) Df(3L)Exel9045 (Cooper et al., 2010) Df(3L)kto22 (Cooper et al., 2010) Df(3L)XS411 (Cooper et al., 2010) Df(3L)XS533 (Cooper et al., 2010) Df(3L)XS543 (Cooper et al., 2010) Df(3L)XS572 (Cooper et al., 2010) Df(3L)XS705 (Cooper et al., 2010) Df(3L)XS917 (Cooper et al., 2010) Df(3L)XS2182 (Cooper et al., 2010)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4622} NA P{KK111537} NA P{TRiP.HMS01288} NA P{UAS-pip.FLAG} NA P{UAS-pip.GFP} NA P{UAS-pip.ST2} NA reporter construct P{pip-lacZ.5'} No heat-shock construct P{hs-pip.S} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions Mi{MIC}pipMI01309 NA PBac{544.SVS-1}pipCPTI002126 NA PBac{PB}pipc02817 NA PBac{PB}pipc03473 NA PBac{PB}pipc05743 NA PBac{PB}pipc06211 NA PBac{PB}pipc06734 NA PBac{RB}pipe00311 NA PBac{RB}pipe00322 NA PBac{RB}pipe03073 NA insertion of enhancer trap binary system Mi{ET1}pipMB04958 No Mi{ET1}pipMB07037 No PBac{GAL4D,EYFP}pipPL00393 No
Gene Ontology: Function, Process & Cellular Component ( 15 unique terms )
Terms Based on Experimental Evidence ( 10 terms )
Molecular Function
CV term Evidence References
NOT chondroitin sulfotransferase activity inferred from direct assay (Xu et al., 2007) NOT heparan sulfate sulfotransferase activity inferred from direct assay (Xu et al., 2007) sulfotransferase activity inferred from mutant phenotype (Zhu et al., 2005)
Biological Process
CV term Evidence References
dorsal/ventral axis specification inferred from genetic interaction with gd AND inferred from genetic interaction with ndl AND inferred from genetic interaction with wbl AND inferred from mutant phenotype (Sen et al., 2000) inferred from mutant phenotype (Zhang et al., 2009) embryonic pattern specification inferred from mutant phenotype (Zhu et al., 2005) protein processing inferred from genetic interaction with ea (Chasan et al., 1992) regulation of multicellular organism growth inferred from mutant phenotype (Zhu et al., 2005)
Cellular Component
CV term Evidence References
chromosome inferred from direct assay (Sen et al., 2000) Golgi apparatus inferred from direct assay (Sen et al., 2000) nucleus inferred from direct assay (Sen et al., 2000)
Terms Based on Predictions or Assertions ( 6 terms )
Molecular Function
CV term Evidence References
heparan sulfate 2-O-sulfotransferase activity inferred from sequence or structural similarity with EMBL:AF060178 (FlyBase, 1992-) non-traceable author statement (Lall and Patel, 2001)
Biological Process
CV term Evidence References
dorsal/ventral axis specification traceable author statement (van Eeden and St. Johnston, 1999) maternal specification of dorsal/ventral axis, oocyte, soma encoded traceable author statement (Chasan et al., 1992) oogenesis non-traceable author statement (Lall and Patel, 2001) Toll signaling pathway traceable author statement (Chasan et al., 1992)
Cellular Component
CV term Evidence References
integral to membrane inferred from electronic annotation with InterPro:IPR005331, InterPro:IPR007734 (FlyBase Curators et al., 2004-)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions pip allele Gene References pip1 gd (Han et al., 2000) pip2 gd (Han et al., 2000)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 65379 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003089 DroID - A comprehensive database of gene and protein interactions. • FBgn0003089 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 40104
Orthologs
Genome-wide drosophilid orthologs	Dyak\GE22927
Curated drosophilid orthologs
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AAEL006219-PA Aedes aegypti (mosquito) AGAP006058-PA Anopheles gambiae (mosquito) XP_395133.2 Apis mellifera (honey bee) XP_001950548.1 Acyrthosiphon pisum (pea aphid) 109805 Branchiostoma floridae (lancelet) 63696 Branchiostoma floridae (lancelet) CPIJ000310 Culex pipens (mosquito) 203735 Capitella spl (polychaete worm) 107932 Daphnia pulex (daphnia) ENSOANP00000019486 Ornithorynchus anatinus (platypus) PHUM000052-PA Pediculus humanus (human body louse) XP_969659.1 Tribolium castaneum (red flour beetle) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • FBgn0239726 FBgn0221553 FBgn0199149 FBgn0174007 FBgn0169793 FBgn0249598 FBgn0158497 FBgn0136292 FBgn0121883 FBgn0087805
Stocks & Reagents
Stocks Listed in FlyBase ( 19 )
Bloomington	24732 w1118; Mi{ET1}pipMB04958 29054 w1118; Mi{ET1}pipMB07037
Harvard	- PBac{PB}pipc02817 - PBac{PB}pipc03473 - PBac{PB}pipc05743 - PBac{PB}pipc06211 - PBac{RB}pipe00311 - PBac{RB}pipe00322 - PBac{RB}pipe03073
VDRC	v102352 P{KK111537}VIE-260B v37775 w1118; P{GD4622}v37775 v37776 w1118; P{GD4622}v37776
	More stocks available...
Genomic Clones ( 1 )
	BACR26P20 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 96 )
	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	LP12067 RE07829 RE11403 RE19313 RE27522
Other clones	DPiM_RE07829 IP16422
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	LD12641 RE06456 RE07320 RE07833 RE18396 RE22913 RE26325 RE30041 RE31662 RE35845 RE56653
Other clones	9107 11676 34318 43255 74664 78433 121368 125711 174486 180228 214443.45 214565.39 CK01.1D.F9 CK01.71A.G10 CK01.77C.D12 CK01.117B.C6 CK00430 CK01369 EC051729 EC052714 EC056232 EK056557 EK060548 EK108044 EK112162 EK148916 EK162663 EK204425 EK207943 EK241432 EK247624 EK251360 IP16522 RP004034567 RP004048591 RP004094095 RP004105235 RP004113650 RP004132598 RP004137515 RP004139274 RP004166843 RP004170815 RP004175828 RP004178475 RP004191948 RP004202306 RP004203402 RP004204580 RP004211867 RP004212246 RP004214992 RP004219002 RP004219634 RP004220755 RP004222651 RP004230008 RP004231406 RP004234436 RP004237289 RP004237494 RP004241217 RP004242226 RP004246147 RP004258666 RP004260022 RP004260820 RP004269894 RP004295357 RP004316569 RP004348019 RP004391635 RP004410761 RP004459041 RP004486190 RP004517881 RP004535992 RP004543238
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0003089 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 40104
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	pip may promote 6-0- and/or N-sulfation of heparan sulfate but is not required for heparan sulfate 2-0-sulfation. (Park et al., 2008) pip protein does not show any heparan sulfate-sulfotransferase or chondroitin sulfate-sulfotransferase activity in vitro. (Xu et al., 2007) Embryonic extracts derived from a cross between pip mutant mothers and Oregon R males lack the 80 kD ea-Spn27A protein complex seen in wild type embryonic extracts. (LeMosy, 2006) 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) A follicular cell marker system that yields a visible phenotype within the mature egg shell allows direct comparison of a clone and its effect on the dorsal ventral pattern of the embryos. Wild type wbl activity is required only in the cells on the ventral side of the follicular epithelium and is restricted along the A/P axis. (Nilson and Schupbach, 1998) Double mutant combinations of pip with ea alleles demonstrate that spatial regulation of ea activity by localized zymogen activation is a key initial event in defining the polarity of the dorsal-ventral embryonic pattern. (Chasan et al., 1992) Strong dorsalizing mutants of ndl, snk, gd or pip have wild type axial ratios in pupae. (Letsou et al., 1991) Mutations in maternal dorsal class gene pip do not interact with RpII140wimp. (Parkhurst and Ish-Horowicz, 1991) Analysis of mosaic females indicates that the expression of ndl, pip and wbl is required in the somatic tissue, in the follicle cells that surround the oocyte, for the production of embryos with the correct dorsoventral axis. (Stein et al., 1991)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_079434 NM_168793 NM_176351 NM_176352 NM_176353 NM_176354 NM_176355 NM_176356 NM_176358 NM_176359 NM_001169996 RefSeq (Proteins) • NP_524158 NP_730402 NP_788529 NP_788530 NP_788531 NP_788532 NP_788533 NP_788534 NP_788536 NP_788537 NP_001163467 DDBJ / EMBL / GenBank • AA141206 AA438376 AAD04925 AAF49170 AAK56855 AAN11662 AAO41225 AAO41226 AAO41227 AAO41228 AAO41229 AAO41230 AAO41231 AAO41232 AAO41233 AAQ23596 ACZ94738 AF102135 AF102136 AF263993 BI167441 BT010278 CZ468666 CZ470218 CZ470503 CZ470504 CZ470955 CZ478208 CZ480838 Entrez Gene - A searchable database of RefSeq genes. • 40104 UniProtKB/TrEMBL • E1JI38 Q86BJ3
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Heparan sulphate 2-O-sulfotransferase (IPR007734) Sulfotransferase (IPR005331)
Linkouts
	BioGRID - A database of protein and genetic interactions • 65379 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0003089 DroID - A comprehensive database of gene and protein interactions. • FBgn0003089 DRSC - Results from RNAi screens. • FBgn0003089 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0003089 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9614-RK;CG9614-RI;CG9614-RG;CG9614-RC;CG9614-RA;CG9614-RE;CG9614-RJ;CG9614-RH;CG9614-RF;CG9614-RD FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0003089 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 40104 InParanoid A subset of ortholog calls from InParanoid. • AAEL006219-PA Aedes aegypti (mosquito) AGAP006058-PA Anopheles gambiae (mosquito) XP_395133.2 Apis mellifera (honey bee) XP_001950548.1 Acyrthosiphon pisum (pea aphid) 109805 Branchiostoma floridae (lancelet) 63696 Branchiostoma floridae (lancelet) CPIJ000310 Culex pipens (mosquito) 203735 Capitella spl (polychaete worm) 107932 Daphnia pulex (daphnia) ENSOANP00000019486 Ornithorynchus anatinus (platypus) PHUM000052-PA Pediculus humanus (human body louse) XP_969659.1 Tribolium castaneum (red flour beetle) Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /torstoll/pipe1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 40104 modMine - Data generated by the modENCODE project. • FBgn0003089 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • FBgn0239726 FBgn0221553 FBgn0199149 FBgn0174007 FBgn0169793 FBgn0249598 FBgn0158497 FBgn0136292 FBgn0121883 FBgn0087805
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG9614 (Keleman et al., 2009.8.5, Ni et al., 2010.12.1) l(3)76BDp (Cooper et al., 2010) pip (Jordan et al., 2005, Mukai et al., 2006, LeMosy, 2006, Xu et al., 2007, Yakoby et al., 2008, Lachance et al., 2009, Sergeev et al., 2001, Cooper et al., 2010, Steen et al., 2010) pipe (Biemar et al., 2005, Hendrix et al., 2008, Zhang et al., 2009) Pipe (Tian and LeMosy, 2008) pipe-ST2 (Sen, 1998.10.27)
Name Synonym	pipe (Jordan et al., 2005, Sen, 1998.10.27, Mukai et al., 2006, Abrams et al., 2006, Carneiro et al., 2006, Biemar et al., 2006, LeMosy, 2006, Shapiro and Anderson, 2006, Sergeev et al., 2001, Kerr et al., 2008, Pai et al., 2006, Meinhardt, 2004, Park et al., 2008, Astigarraga et al., 2007, Goentoro et al., 2006, Goodfellow et al., 2007, Hurlbut et al., 2009, DeLotto, 2001, Zhang et al., 2009, Lachance et al., 2009, Zeitlinger et al., 2007, Cho et al., 2010, Cooper et al., 2010, Goentoro et al., 2006) Pipe (Lippert et al., 2007, Stein et al., 2008)
Secondary FlyBase IDs
References ( 200 )
Generate a list of	All references relating to this gene ( 200 )
List References by type	Research paper  ( 77 ) Supplementary material  ( 6 ) Review  ( 53 ) Personal communication to FlyBase  ( 12 ) Abstract  ( 39 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 2 ) Stock list  ( 1 ) Computer file  ( 3 ) Automatic genome annotation  ( 1 ) Letter  ( 1 ) Book  ( 1 ) Biography  ( 1 )
Recent research papers ( 4 )
	Blanco et al., 2010, BMC Dev. Biol. 10: 94 Gene expression following induction of regeneration in Drosophila wing imaginal discs. Expression profile of regenerating wing discs. [FBrf0211812] Cho et al., 2010, Curr. Biol. 20(12): 1133--1137 Pipe-Dependent Ventral Processing of Easter by Snake Is the Defining Step in Drosophila Embryo DV Axis Formation. [FBrf0211253] Cooper et al., 2010, Genetics 185(3): 811--822 Molecular Genetic Analysis of Chd3 and Polytene Chromosome Region 76B-D in Drosophila melanogaster. [FBrf0211329] Steen et al., 2010, FEBS Lett. 584(16): 3557--3560 Activation of Snake in a serine protease cascade that defines the dorsoventral axis is atypical and pipe-independent in Drosophila embryos. [FBrf0211517] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...