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Gene Dmel\Ptx1

General Information
Symbol	Dmel\Ptx1	Species	D. melanogaster
Name	Ptx1	Annotation symbol	CG1447
Feature type	protein_coding_gene	FlyBase ID	FBgn0020912
Created / Updated	2005-03-18/2005-03-18
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	100A7-100B1	Sequence location	3R:26,738,610..26,756,404 [+]
Map ( GBrowse )	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	This gene is referred to in FlyBase by the symbol Ptx1 (CG1447, FBgn0020912). It has the cytological map location 100A7-100B1. Its sequence location is 3R:26738610..26756404. Its molecular function is described as: transcription factor activity; sequence-specific DNA binding. It is involved in the biological processes: regulation of transcription; dendrite morphogenesis; regulation of transcription, DNA-dependent. 2 alleles are reported. No phenotypic data is available. It has 4 annotated transcripts and 4 annotated polypeptides.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 100A7-100B1   Limits computationally determined from genome sequence between P{lacW}l(3)s2500s2500 and P{PZ}Aph-407028&P{PZ}dcorK215
Experimentally Determined Cytological Location
Cytogenetic map Notes References 100B1-100B2   (Vorbrueggen, 1997.9.10) 100B1-100B2 (determined by in situ hybridisation)   (Vorbruggen et al., 1997)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References In direction of increasing cytology: tll? Ptx1+ (Vorbruggen et al., 1997) Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\Ptx1 for information on other features
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Ptx1-RA FBtr0089389  NM_170531   2891   509 Ptx1-RB FBtr0089390  NM_176593   2030   318 Ptx1-RC FBtr0089391  NM_206591   3437   514 Ptx1-RD FBtr0273386     2454   679
Additional Transcript Data & Comments
Reported size (kB)	3.5 (sequence analysis) (Vorbruggen et al., 1997)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein Ptx1-PA   FBpp0088412   53.2   509   8.77     NP_733410   Ptx1-PB   FBpp0088413   34.8   318   10.22     NP_788770   Ptx1-PC   FBpp0088974   53.8   514   8.77     NP_996314   Ptx1-PD   FBpp0271894   71.8   679   9.00
Additional Polypeptide Data & Comments
Reported size (kD)	513 (aa); 62 (kD observed) (Vorbruggen et al., 1997)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0020912
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Homeobox (IPR001356) Paired-like homeodomain protein, OAR (IPR003654) Homeodomain-like (IPR009057) Homeodomain-related (IPR012287) Homeobox Pitx/unc30 (IPR016233)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AC007975   AC008219   AE003776 AAF57099   AE003776 AAO41617   AE003776 AAS65234   AJ001519 CAA04801   BF485598   BI161819   BI161820   BI165046   BI374070   BT009990 AAQ22459   CO188618   CO274245   CO276683   CO290195   CO293416   CO294670   CO294759   CO299178   CO313327   CO328414   CO343589   EC071663   EC075352   EC207803   EC224131   EC229709   EC235689   EC243817   EC248501   EC252443   EC254211   EC257291   RE01314
UniProtKB/Swiss-Prot	O18400
UniProtKB/TrEMBL	Q7KRT5 Q86B70
Maps to	FBcl0298199 FBcl0298200 (FlyBase, 1992-)
Does NOT map to
Identified with
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 • 11435
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 4   (Vorbruggen et al., 1997)  embryonic stage | stage 8  proctodeum (Vorbruggen et al., 1997)  embryonic stage | stage 4   (Vorbruggen et al., 1997)
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference  embryonic stage | stage 11-13  midgut (Vorbruggen et al., 1997)  embryonic stage | stage 11-13  central nervous system | segmentally repeated (Vorbruggen et al., 1997)  embryonic stage | stage 16  muscle | segmentally repeated (Vorbruggen et al., 1997)  embryonic stage | stage 15  midgut constriction 2 (Vorbruggen et al., 1997)
Marker for
Subcellular Localization
CV Term
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0020912 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0020912 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0020912 FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Ptx1 Stage(s) 4-6 Stage(s) 7-8 Stage(s) 9-10 Stage(s) 11-12 Stage(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of Ptx1 Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Ptx1 Class Mutagen Stocks Known lesion Ptx1GD4162 in vitro construct | RNAi in vitro construct | regulatory fusion 1 Yes Ptx1hs.PV in vitro construct | regulatory fusion 0 Yes
Aneuploid Aberrations
Useful deficiency	Df(3R)tll-e
Useful duplication	Dp(3;3)516
Disrupted in	Df(3R)A113 (Zilian et al., 1999) Df(3R)A177.X1 (Zilian et al., 1999) Df(3R)A177.X3 (Zilian et al., 1999) Df(3R)A177der21 (Zilian et al., 1999) Df(3R)A177der22 (Zilian et al., 1999) Df(3R)A177der25 (Zilian et al., 1999) Df(3R)A177der26 (Zilian et al., 1999) Df(3R)Exel6260 (Ryder, 2004.4.26) Df(3R)PH3 (Zilian et al., 1999)
Not disrupted in	Df(3R)A177der20 (Zilian et al., 1999) Df(3R)PGX8 (Zilian et al., 1999)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data reporter construct P{Ptx1-lacZ.V} No UAS construct P{GD4162} NA heat-shock construct P{hs-Ptx1.V} NA
Insertions
	Type of insertions Name Expression data
Related Comments
	Please look at the allele reports for the complete phenotype data dsRNA has been made from templates generated with primers directed against this gene. RNAi of Ptx1 disrupts the dendritic routing patterns of the ddaD and ddaE neurons, resulting in aberrantly oriented primary dendrites. RNAi also causes defects in dendrite morphogenesis. (Parrish et al., 2006)
Gene Ontology: Function, Process & Cellular Component ( 6 )
Molecular Function
CV term Evidence References
sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001356 (FlyBase Curators et al., 2004-)
transcription factor activity inferred from sequence or structural similarity with MGD:Pitx2; MGI:MGI:109340 (FlyBase, 1992-)
Biological Process
CV term Evidence References
dendrite morphogenesis inferred from mutant phenotype (Parrish et al., 2006)
regulation of transcription inferred from sequence or structural similarity with MGD:Pitx2; MGI:MGI:109340 (FlyBase, 1992-)
regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR001356 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
transcription factor complex inferred from sequence or structural similarity with MGD:Pitx2; MGI:MGI:109340 (FlyBase, 1992-)
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 Ptx1 allele Gene References
External Data
Linkouts	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 68514
Orthologs
Genome-wide drosophilid orthologs	Dana\GF22931 Dere\GG11784 Dgri\GH14222 Dmoj\GI22129 Dper\GL13525 Dpse\GA13007 Dsec\GM12914 Dsim\GD21552 Dvir\GJ24250 Dwil\GK14162 Dyak\GE10911
Curated drosophilid orthologs	Dpse\GA13007
Linkouts	InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000019330 Anopheles gambiae (Ensembl) ENSBTAP00000011939 Bos taurus (Ensembl) ENSCAFP00000017094 Canis familiaris (Ensembl) ENSCINP00000010867 Ciona intestinalis (Ensembl) NEWSINFRUP00000164946 Takifugu rubripes (Ensembl) ENSGALP00000008994 Gallus gallus (Ensembl) ENSP00000304169 Homo sapiens (Ensembl) ENSMMUP00000014856 Macaca mulatta (Ensembl) ENSMODP00000017945 Monodelphis domestica (Ensembl) ENSPTRP00000028118 Pan troglodytes (Ensembl) ENSRNOP00000014368 Rattus norvegicus (Ensembl) GSTENP00024400001 Tetraodon nigroviridis (Ensembl) ENSXETP00000029210 Xenopus tropicalis (Ensembl) WBGene00025006 Caenorhabditis briggsae (Wormbase) WBGene00006766 Caenorhabditis elegans (Wormbase) ZDB-CDNA-050417-54 Danio rerio (Zfin) ZDB-GENE-990714-27 Danio rerio (Zfin) MGI:109340 Mus musculus (Informatics)
Functional Complementation between Species
Inter-Species Misexpression Data
Produces phenotype in
Produces NO phenotype in
Stocks & Reagents
Stocks Listed in FlyBase ( 1 )
VDRC	v19831 w1118 P{GD4162}v19831
Genomic Clones ( 2 )
	BACR06P08 BACR03C06
cDNA Clones ( 16 )
	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	RE41906
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RE61583 RE04849 AT19525
Other clones	EK207421 EP17325 EK113626 EK207616 EK073320 RE01314 EK202862 EK121831 EK174664 EK041230 EP09153 EK232134
RNAi & Array Information
Affy Oligo
Linkouts	DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0020912 GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data • FBgn0020912
Antibody Information
	polyclonal (Vorbruggen et al., 1997)
Other Information
Discoverer
Etymology
Identification
Position Effect Variegation Data
Relationship to Other Genes
Source for database identity of	Source for identity of: Ptx1 CG1447 (Yao, 1999.11)
Source for database merge of
Additional comments
Comments About Role
Comments About Molecular Function
Other Comments
	Ptx1 has been cloned and characterised. (Vorbruggen et al., 1997)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_170531 NM_206591 NM_176593 RefSeq (Proteins) • NP_733410 NP_996314 NP_788770 DDBJ / EMBL / GenBank • AAS65234.1 AAF57099.3 AAO41617.1 AC007975 AC008219 AE003776 AAS65234 AAF57099 AAO41617 AJ001519 CAA04801 BT009990 AAQ22459 UniProtKB/Swiss-Prot • O18400 UniProtKB/TrEMBL • Q7KRT5 Q86B70
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Homeobox (IPR001356) Paired-like homeodomain protein, OAR (IPR003654) Homeodomain-like (IPR009057) Homeodomain-related (IPR012287) Homeobox Pitx/unc30 (IPR016233)
Linkouts
	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 68514 DEDB - Drosophila exon database: splicing graphs • 11435 DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0020912 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0020912 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0020912 FlyExpress - Embryonic expression images (BDGP data) • FBgn0020912 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0020912 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0020912 GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data • FBgn0020912 InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000019330 Anopheles gambiae (Ensembl) ENSBTAP00000011939 Bos taurus (Ensembl) ENSCAFP00000017094 Canis familiaris (Ensembl) ENSCINP00000010867 Ciona intestinalis (Ensembl) NEWSINFRUP00000164946 Takifugu rubripes (Ensembl) ENSGALP00000008994 Gallus gallus (Ensembl) ENSP00000304169 Homo sapiens (Ensembl) ENSMMUP00000014856 Macaca mulatta (Ensembl) ENSMODP00000017945 Monodelphis domestica (Ensembl) ENSPTRP00000028118 Pan troglodytes (Ensembl) ENSRNOP00000014368 Rattus norvegicus (Ensembl) GSTENP00024400001 Tetraodon nigroviridis (Ensembl) ENSXETP00000029210 Xenopus tropicalis (Ensembl) WBGene00025006 Caenorhabditis briggsae (Wormbase) WBGene00006766 Caenorhabditis elegans (Wormbase) ZDB-CDNA-050417-54 Danio rerio (Zfin) ZDB-GENE-990714-27 Danio rerio (Zfin) MGI:109340 Mus musculus (Informatics) PANTHER - Protein classification by function, families, and pathways • FBgn0020912
Synonyms & Secondary IDs ( 5 )
Reported As
Symbol Synonym	CG1447   D-Ptx1 (Zilian et al., 1999, Vorbruggen et al., 1997) Ptx (Popovici et al., 2001) ptx1 (Vorbrueggen, 1997.9.10) Ptx1 (Parrish et al., 2006)
Name Synonym	Ptx1
Secondary FlyBase IDs
References ( 16 )
Research paper	Parrish et al., 2006, Genes Dev. 20(7): 820--835 Genome-wide analyses identify transcription factors required for proper morphogenesis of Drosophila sensory neuron dendrites. [FBrf0190556] Ruvinsky and Ruvkun, 2003, Development 130(21): 5133--5142 Functional tests of enhancer conservation between distantly related species. [FBrf0162086] Tomancak et al., 2002, GenomeBiol. 3(12): RESEARCH0088 Systematic determination of patterns of gene expression during Drosophila embryogenesis. [FBrf0155831] Popovici et al., 2001, FEBS Lett. 491(3): 237--242 Homeobox gene clusters and the human paralogy map. [FBrf0135227] Coulier et al., 2000, J. exp. Zool. 288(4): 345--351 MetaHox gene clusters. [FBrf0134731] Galliot et al., 1999, Dev. Genes Evol. 209(3): 186--197 Evolution of homeobox genes: Q50 Paired-like genes founded the Paired class. [FBrf0106517] Zilian et al., 1999, Development 126(23): 5409--5420 double-time is identical to discs overgrown, which is required for cell survival, proliferation and growth arrest in Drosophila imaginal discs. [FBrf0112100] Vorbruggen et al., 1997, Mech. Dev. 68(1,2): 139--147 Embryonic expression and characterization of a Ptx1 homolog in Drosophila. [FBrf0099847]
Personal communication to FlyBase	Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327] FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215] Ryder, 2004.4.26, Exelixis CG deletion data. Exelixis CG deletion data. [FBrf0184335]
FlyBase analysis	FlyBase, 1992-, FlyBase curation FlyBase curation. [FBrf0105495]
DNA/RNA sequence record	Vorbrueggen, 1997.9.10, GenBank/EMBL/DDBJ: AJ001519 Drosophila melanogaster mRNA for Ptx1 homeodomain protein. [FBrf0121851]
Curated genome annotation	Lei, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126680] Yao, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126699]
Automatic genome annotation	FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126705]