Gene Dmel\pip

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General Information

Symbol

Dmel\pip

Species

D. melanogaster

Name

pipe

Annotation symbol

CG9614

Feature type

protein_coding_gene

FlyBase ID

FBgn0003089

Created / Updated

2003-12-01/2003-12-01

Genomic Location

Chromosome (arm)

Recombination map

3-47

Cytogenetic map

76A5-76A6

Sequence location

3L:19,291,630..19,330,699 [-]

Map ( GBrowse )

Summary Information

Automatically generated summary

See sections below for more information

The gene pipe is referred to in FlyBase by the symbol pip (CG9614, FBgn0003089). It has the cytological map location 76A5-76A6. Its sequence location is 3L:19291630..19330699. Its molecular function is described as: sulfotransferase activity; heparan sulfate 2-O-sulfotransferase activity. It is involved in the biological processes: Toll signaling pathway; maternal determination of dorsal/ventral axis, oocyte, soma encoded; protein processing; embryonic pattern specification; regulation of multicellular organism growth; dorsal/ventral axis specification; oogenesis. 28 alleles are reported. The phenotypes of these alleles are annotated with: embryonic epidermis; embryonic/first instar larval cuticle; denticle field; embryo; embryonic salivary gland. It has 11 annotated transcripts and 11 annotated polypeptides.

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).

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

76A5-76A6

Limits computationally determined from genome sequence between P{EP}MESR6^EP3142 and P{lacW}l(3)L3809^L3809

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

Molecular Map Data

Gene Order (in direction of increasing cytology)

References

Gene Order (overall orientation not stated)

References

Overall orientation not stated: fal+ pip- fal+ pip-

(Steinmann-Zwicky, 1999.9.28)

Gene Model & Products

Please see the GBrowse view of Dmel\pip for information on other features

Comments on Gene Model

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-RE

FBtr0075006

NM_176357

1399

409

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

1375

401

pip-RK

FBtr0075012

NM_176359

1390

406

pip-RL

FBtr0075013

NM_176358

1714

514

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 (kD)

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-PE

FBpp0074773

48.0

409

9.29

NP_788535

AAO41231

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

Additional Polypeptide Data & Comments

Reported size (kD)

403, 392 (aa)

(Sen et al., 1998)

Comments

External Data

Linkouts

PANTHER - Protein classification by function, families, and pathways

•

FBgn0003089

Crossreferences

InterPro domains - A database of protein families, domains, and functional sites

•

Heparan sulphate 2-O-sulphotransferase (IPR007734)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Q86BJ3

Maps to

(Sen et al., 1998)

Does NOT map to

Identified with

(Sen et al., 1998)

RE07829

(BDGP Project Members, 2000-, Mukai et al., 2006)

Mapped Features & Mutations

Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here

Type

Symbol & Location

Additional Notes

References

point mutation

pip[3]
3L:19,306,258..19,306,258

(Zhu et al., 2005)

point mutation

pip[7]
3L:19,293,216..19,293,216

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=G19293216A
pr_change=V133I|pip-PA
reported_pr_change=V123I

(Zhu et al., 2005)

point mutation

pip[1]
3L:19,293,215..19,293,215

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=T19293215A
pr_change=V133D|pip-PA
reported_pr_change=V123D

(Zhu et al., 2005)

point mutation

pip[4]
3L:19,293,129..19,293,129

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469. Same mutation as pip[5].
evidence=experimental
na_change=G19293129A
pr_change=E162K|pip-PA
reported_pr_change=E152K

(Zhu et al., 2005)

point mutation

pip[5]
3L:19,293,129..19,293,129

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469. Same mutation as pip[4].
evidence=experimental
na_change=G19293129A
pr_change=E162K|pip-PA
reported_pr_change=E152K

(Zhu et al., 2005)

point mutation

pip[9]
3L:19,293,006..19,293,006

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=A19293006T
pr_change=R203@|pip-PA
reported_pr_change=R193@

(Zhu et al., 2005)

point mutation

pip[8]
3L:19,292,759..19,292,759

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=G19292759A
pr_change=C285Y|pip-PA
reported_pr_change=C275Y

(Zhu et al., 2005)

point mutation

pip[6]
3L:19,292,582..19,292,582

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=G19292582A
pr_change=G315E|pip-PA
reported_pr_change=G315E

(Zhu et al., 2005)

point mutation

pip[11]
3L:19,292,211..19,292,211

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=A19292211T
pr_change=N353Y|pip-PA
reported_pr_change=N343Y

(Zhu et al., 2005)

point mutation

pip[12]
3L:19,292,142..19,292,142

comment=Site of nucleotide substitution in mutant inferred by FlyBase based on reported amino acid change. Difference between reported and FlyBase amino acid change due to authors use of GenBank record gi:7293803 which has since been replaced by a new version gi:28380469.
evidence=experimental
na_change=G19292142A
pr_change=E376K|pip-PA
reported_pr_change=E366K

(Zhu et al., 2005)

External Data

Linkouts

DEDB - Drosophila exon database: splicing graphs

•

3574

Crossreferences

Expression Data

FlyBase-Curated Data

Transcript and
Protein data

Please see the FlyBase Gene Expression Report for details of gene expression from the literature.

Summary of Transcript Expression

Stage

Tissue/Position

Reference

embryonic stage | stage >=12

embryonic/larval pharynx | anterior

(Sen et al., 1998)

oogenesis stage,adult stage | stage S9-S10

follicle cell | ventral

(Sen et al., 1998)

embryonic stage

(Sen et al., 1998)

oogenesis stage

(Sen et al., 1998)

embryonic stage | stage >=14

gonad | presumptive

(Sen et al., 1998)

embryonic stage | stage >=12

embryonic/larval pharynx | anterior

(Sen et al., 1998)

embryonic stage

(Sen et al., 1998)

embryonic stage | stage >=12

embryonic/larval salivary gland

(Sen et al., 1998)

embryonic stage | stage >=12

embryonic/larval salivary gland

(Sen et al., 1998)

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

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

•

FBgn0003089

GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies

•

FBgn0003089

BDGP expression data

•

Show all BDGP original images, annotations and embryonic microarray data for pip

FlyExpress - Embryonic expression images (BDGP data)

•

Show all FlyExpress processed images for pip

Stage(s) 4-6

Stage(s) 11-12

Stage(s) 13-16

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable

pip^PL00393

semi-lethal (with Df(3L)pipe^A13)

Other Phenotypes

Allele

small body (with Df(3L)pipe^A13)

tissue polarity defective | dorsal-ventral polarity

developmental rate defective (with Df(3L)pipe^A13)

Sterility

Allele

fertile

pip^PL00393

Phenotype manifest in

Allele

embryonic epidermis | ventral

pip¹

embryonic/first instar larval cuticle

embryonic/first instar larval cuticle | maternal effect

pip¹

embryonic epidermis | maternal effect | somatic clone

pip²

denticle field | maternal effect | somatic clone

pip²

embryonic salivary gland

embryonic/first instar larval cuticle | maternal effect (with Df(3L)pipe^A13)

pip⁷

embryo | ventral

pip^unspecified

embryonic epidermis

pip^unspecified

Classical Alleles ( 23 )

For All Classical Alleles Show

Allele of pip	Mutagen	Stocks	Known lesion
pip¹¹	ethyl methanesulfonate	0	Yes
pip¹²	ethyl methanesulfonate	0	Yes
pip¹	ethyl methanesulfonate	2	Yes
pip²³⁶		0	--
pip²⁸⁶		0	--
pip²	ethyl methanesulfonate	2	--
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
pip^C14	P-element activity	0	Yes
pip^MB04958		1	--
pip^PL00393	P-element activity	1	--
pip^c03473	piggyBac transposase	1	--
pip^c05743	piggyBac transposase	1	--
pip^c06211	piggyBac transposase	1	--
pip^c06734	piggyBac transposase	0	--
pip^e00322	piggyBac transposase	1	--
pip^e03073	piggyBac transposase	1	--
pip^unspecified		0	--

Alleles Carried on Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show