Gene Dmel\pit

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General Information

Symbol

Dmel\pit

Species

D. melanogaster

Name

pitchoune

Annotation symbol

CG6375

Feature type

protein_coding_gene

FlyBase ID

FBgn0025140

Created / Updated

2003-12-01/2003-12-01

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

94A1-94A1

Sequence location

3R:17,860,020..17,864,118 [+]

Map ( GBrowse )

Summary Information

Automatically generated summary

See sections below for more information

The gene pitchoune is referred to in FlyBase by the symbol pit (CG6375, FBgn0025140). It has the cytological map location 94A1. Its sequence location is 3R:17860020..17864118. Its molecular function is described as: ATP-dependent RNA helicase activity; RNA helicase activity; ATP binding; nucleic acid binding. The biological processes in which it is involved are not known. 8 alleles are reported. The phenotype of these alleles is annotated with dorsal mesothoracic disc. It has 2 annotated transcripts and 2 annotated polypeptides.

External Summaries

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

94A1-94A1

Limits computationally determined from genome sequence between P{PZ}tsl⁰⁰⁶¹⁷ and P{lacW}how^j5B5&P{EP}EP738

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

93F-93F

(Zaffran, 1997.1.9)

93F-93F

(determined by in situ hybridisation)

(Zaffran et al., 1998)

Experimentally Determined Recombination Data

Location

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: pit+ how+

(Zaffran et al., 1998)

Gene Model & Products

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

Comments on Gene Model

Translation start as per accession U84552

Multiple ESTs homologous to non-coding strand of this gene.

DGC clone GM24494 appears problematic: incomplete CDS

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

pit-RA

FBtr0084175

NM_079722

2202

680

pit-RB

FBtr0084174

NM_169991

2328

680

Additional Transcript Data & Comments

Reported size (kB)

2.4 (northern blot)

(Zaffran 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

pit-PA

FBpp0083573

76.9

680

8.19

NP_524446

AAF55951

pit-PB

FBpp0083572

76.9

680

8.19

NP_732694

AAN13900

Additional Polypeptide Data & Comments

Reported size (kD)

772 (aa); 75 (kD predicted)

(Zaffran et al., 1998)

Comments

External Data

Linkouts

PANTHER - Protein classification by function, families, and pathways

•

FBgn0025140

Crossreferences

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

•

RNA helicase, ATP-dependent, DEAD-box, conserved site (IPR000629)

DNA/RNA helicase, C-terminal (IPR001650)

DNA/RNA helicase, DEAD/DEAH box type, N-terminal (IPR011545)

DEAD-like helicase, N-terminal (IPR014001)

RNA helicase, DEAD-box type, Q motif (IPR014014)

Helicase, superfamily 1 and 2, ATP-binding (IPR014021)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Q9VD51

UniProtKB/TrEMBL

Maps to

Does NOT map to

Identified with

(BDGP Project Members, 2000-)

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

External Data

Linkouts

DEDB - Drosophila exon database: splicing graphs

•

10282

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 | early

(Zaffran et al., 1998)

oogenesis stage,adult stage

germarium

(Zaffran et al., 1998)

embryonic stage | stage 16

Malpighian tubule

(Zaffran et al., 1998)

oogenesis stage,adult stage | stage >=4

egg chamber

(Zaffran et al., 1998)

larval stage

imaginal disc | ubiquitous

(Zaffran et al., 1998)

embryonic stage | stage 11

anal plate

(Zaffran et al., 1998)

embryonic stage | stage >=11

anterior midgut primordium

(Zaffran et al., 1998)

embryonic stage | stage 11

embryonic/larval salivary gland | precursor

(Zaffran et al., 1998)

embryonic stage | stage 16

epithelial sheath <of> embryonic/larval midgut

(Zaffran et al., 1998)

embryonic stage | stage 16

epithelial sheath <of> embryonic/larval hindgut

(Zaffran et al., 1998)

embryonic stage | stage 16

gonadal sheath

(Zaffran et al., 1998)

embryonic stage | stage 16

embryonic/larval midgut

(Zaffran et al., 1998)

embryonic stage | stage >=11

posterior midgut primordium

(Zaffran et al., 1998)

embryonic stage | gastrulation

mesoderm

(Zaffran et al., 1998)

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

nucleolus

(Zaffran et al., 1998)

Microarray Data

Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)

Untitled Document detailed view

AI514629
AA950178

External Data & Images

Linkouts

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

•

FBgn0025140

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0025140

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

•

FBgn0025140

BDGP expression data

•

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

FlyExpress - Embryonic expression images (BDGP data)

•

Show all FlyExpress processed images for pit

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable

lethal | recessive

pit¹⁰

Sterility

Allele

fertile

pit^f06954

Phenotype manifest in

Allele

adult midgut precursor & larva

pit¹⁰

larval midgut & embryo

pit¹⁰

larval salivary gland & embryo

pit¹⁰

imaginal precursor & larva

pit¹⁰

dorsal mesothoracic disc, with Scer\GAL4^en-e16E

pit^Scer\UAS.cZa

dorsal mesothoracic disc | posterior compartment, with Scer\GAL4^en-e16E

pit^Scer\UAS.cZa

Classical Alleles ( 4 )

For All Classical Alleles Show

Allele of pit	Class	Mutagen	Stocks	Known lesion
pit¹⁰	loss of function	P-element activity	0	Yes
pit⁴		P-element activity	0	Yes
pit⁵		P-element activity	0	Yes
pit^f06954		piggyBac transposase	1	--

Alleles Carried on Transgenic Constructs ( 4 )

For All Alleles Carried on Transgenic Constructs Show

Allele of pit	Mutagen	Stocks	Known lesion
pit^GD11905	in vitro construct \| RNAi in vitro construct \| regulatory fusion	1	Yes
pit^Scer\UAS.cZa	in vitro construct \| regulatory fusion	0	Yes
pit^{hs.T:Hsap\MYC}	in vitro construct \| regulatory fusion in vitro construct \| coding region fusion	0	Yes
pit^mod.PZ	in vitro construct \| regulatory fusion	0	Yes

Aneuploid Aberrations

Useful deficiency

Df(3R)e-BS2

Useful duplication

Dp(3;3)M95A⁺13

Disrupted in

Df(3R)Exel6188

(Ryder, 2004.4.26)

Df(3R)e-BS2

(Zaffran et al., 1998)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

P{GD11905}

P{UAS-pit.Z}

characterization construct

P{mod-pit.Z}

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

PBac{WH}BG4^f02804

PBac{WH}BG4^f06954

P{?lacW}pit¹⁰

insertion of mobile activating element

P{EPgy2}BG4^EY10870

P{EPgy2}BG4^EY14017

Related Comments

Please look at the allele reports for the complete phenotype data

dsRNA made from templates generated with primers directed against pit that is transfected into S2 treated with Listeria monocytogenes reveals pit to be involved in Listeria monocytogenes intracellular growth and vacuolar escape.

(Cheng et al., 2005)

dsRNA made from templates generated with primers directed against this gene in combination with dsRNA against gig results in suppression of the final average cell size, with it being closer to the control average cell size, rather than the average cell size resulting from knockdown of the candidate gene alone.

(Guertin et al., 2006)

Gene Ontology: Function, Process & Cellular Component ( 6 )

Molecular Function

CV term

Evidence

References

ATP binding

inferred from electronic annotation with InterPro:IPR000629, InterPro:IPR001650, InterPro:IPR011545

(FlyBase Curators et al., 2004-)

ATP-dependent RNA helicase activity

inferred from sequence or structural similarity with SGD_LOCUS:HAS1; SGD:S0004903

(FlyBase, 1992-)

non-traceable author statement

(Swiss-Prot Project Members, 2000.10.1)

RNA helicase activity

inferred from sequence or structural similarity with SGD_LOCUS:HAS1; SGD:S0004903

(Lasko, 2000)

nucleic acid binding

inferred from electronic annotation with InterPro:IPR000629, InterPro:IPR001650, InterPro:IPR011545

(FlyBase Curators et al., 2004-)

Biological Process

CV term

Evidence

References

Cellular Component

CV term

Evidence

References

nucleolus

non-traceable author statement

(Swiss-Prot Project Members, 2000.10.1)

nucleus

non-traceable author statement

(Swiss-Prot Project Members, 2000.10.1)

Sequence Ontology: Class of Gene

protein_coding_gene

nuclear_gene

Interactions & Pathways

Summary of Genetic Interactions

Interacts with

Please look at the allele data for full details of the genetic interactions

pit allele

Gene

References

External Data

Linkouts

BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions

•

67556

Orthologs

Genome-wide drosophilid orthologs

Dana\GF18065

Dere\GG11103

Dgri\GH20986

Dmoj\GI10456

Dper\GL24012

Dpse\GA26479

Dsec\GM26397

Dsim\pit

Dvir\GJ23143

Dwil\GK14240

Dyak\GE10265

Curated drosophilid orthologs

Dpse\GA19548

Dsim\pit

(Begun, 2000.4.5)

Linkouts

InParanoid orthologs - Eukaryotic orthologs

•

ENSANGP00000013137
Anopheles gambiae (Ensembl)
ENSBTAP00000038966
Bos taurus (Ensembl)
ENSCAFP00000007369
Canis familiaris (Ensembl)
ENSCINP00000004811
Ciona intestinalis (Ensembl)
NEWSINFRUP00000136232
Takifugu rubripes (Ensembl)
ENSGALP00000019814
Gallus gallus (Ensembl)
ENSP00000263239
Homo sapiens (Ensembl)
ENSMMUP00000028115
Macaca mulatta (Ensembl)
ENSMODP00000000641
Monodelphis domestica (Ensembl)
ENSPTRP00000021219
Pan troglodytes (Ensembl)
ENSRNOP00000038728
Rattus norvegicus (Ensembl)
GSTENP00033108001
Tetraodon nigroviridis (Ensembl)
ENSXETP00000044950
Xenopus tropicalis (Ensembl)
Q84T03
Oryza sativa (Gramene)
AT5G65900.1
Arabidopsis thaliana (Arabidopsis)
WBGene00033411
Caenorhabditis briggsae (Wormbase)
WBGene00015232
Caenorhabditis elegans (Wormbase)
ZDB-CDNA-050612-10
Danio rerio (Zfin)
ZDB-GENE-030131-9685
Danio rerio (Zfin)
DDB0204960
Dictyostelium discoideum (Dictybase)
MGI:1914192
Mus musculus (Informatics)
YMR290C
Saccharomyces cerevisiae (Yeastgenome)
SPAC1F7.02c
Schizosaccharomyces pombe (Sanger)

Functional Complementation between Species

Inter-Species Misexpression Data

Produces phenotype in

Produces NO phenotype in

Stocks & Reagents

Stocks Listed in FlyBase ( 6 )

v27600

w¹¹¹⁸; P{GD11905}v27600

Bloomington

19026

w¹¹¹⁸; PBac{WH}BG4^f06954 pit^f06954

20638

y¹ w^67c23; P{EPgy2}BG4^EY10870 pit^EY10870

20904

y¹ w^67c23; P{EPgy2}BG4^EY14017 pit^EY14017

Genomic Clones ( 2 )

cDNA Clones ( 29 )

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

Other clones

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Affy Oligo

Linkouts

DRSC - RNAi screening (Harvard): high-throughput cell culture data and design

•

FBgn0025140

GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data

•

FBgn0025140

Antibody Information

polyclonal

(Zaffran et al., 1998)

Other Information

Discoverer

Etymology

Etymology: the gene is named "pitchoune" (meaning "small" in the Provencal language) after the phenotype of mutant larvae, which do not grow beyond the first instar stage but can survive for as long as 7-10 days.

(Zaffran et al., 1998)

Identification

Position Effect Variegation Data

Relationship to Other Genes

Source for database identity of

Source for database merge of

Additional comments

Comments About Role

pit is required for cell growth and proliferation.

(Zaffran et al., 1998)

Comments About Molecular Function

Other Comments