FlyBase Gene Report: Dmel\Ptx1

General Information

Symbol

Dmel\Ptx1

Species

D. melanogaster

Name

Ptx1

Annotation Symbol

CG1447

Feature Type

protein_coding_gene

FlyBase ID

FBgn0020912

Gene Model Status

Current

Stock Availability

39 publicly available

Gene Summary

Ptx1 (Ptx1) encodes a paired-like homeobox transcription factor expressed during embryogenesis and in the adult digestive tract. It is strongly expressed in the middle midgut (copper cell region) where it is required for local stem cell quiescence and proper function of this region. [Date last reviewed: 2019-09-26] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

D-Ptx1

Key Links

Genomic Location

Cytogenetic map

100A7-100B1

Sequence location

3R:30,912,754..30,930,682 [+]

Recombination map

3-101

RefSeq locus

NT_033777 REGION:30912754..30930682

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (10 terms)

Molecular Function (5 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (5 terms)

CV Term

Evidence

References

enables DNA binding

inferred from electronic annotation with InterPro:IPR001356

(InterPro Project Members, 2004-)

enables DNA-binding transcription factor activity, RNA polymerase II-specific

inferred from electronic annotation with InterPro:IPR017970

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN001551528

(GO Reference Genome Project, 2011-)

enables DNA-binding transcription factor activity

inferred from sequence or structural similarity with MGI:MGI:109340

(Gene Ontology Curators, 2002-)

enables RNA polymerase II cis-regulatory region sequence-specific DNA binding

inferred from biological aspect of ancestor with PANTHER:PTN001551528

(GO Reference Genome Project, 2011-)

enables sequence-specific DNA binding

inferred from sequence or structural similarity with MGI:MGI:109340

(Gene Ontology Curators, 2002-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

involved_in anatomical structure morphogenesis

inferred from biological aspect of ancestor with PANTHER:PTN001551528

(GO Reference Genome Project, 2011-)

involved_in regulation of DNA-templated transcription

inferred from electronic annotation with InterPro:IPR017970

(InterPro Project Members, 2004-)

involved_in regulation of transcription by RNA polymerase II

inferred from biological aspect of ancestor with PANTHER:PTN001551528

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with MGI:MGI:109340

(Gene Ontology Curators, 2002-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Vorbruggen et al., 1997)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN001551528

(GO Reference Genome Project, 2011-)

located_in nucleus

inferred from sequence or structural similarity with MGI:MGI:109340

(Gene Ontology Curators, 2002-)

part_of transcription regulator complex

inferred from sequence or structural similarity with MGI:MGI:109340

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

PAIRED-LIKE HOMEOBOX TRANSCRIPTION FACTORS

Protein Family (UniProt)

Belongs to the paired homeobox family. Bicoid subfamily. (O18400)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

PAIRED-LIKE HOMEOBOX TRANSCRIPTION FACTORS -: Paired-like (PRD-like) homeobox transcription factors are sequence-specific DNA binding proteins that regulate transcription. PRD-like transcription factors lack a paired domain but possess a homeodomain characteristic of the paired homeobox transcription factors. Some members also possess an Engrailed Homology 1 (EH1) and/or an OAR motif near the C-terminus. (Adapted from FBrf0232555 and FBrf0106517).

Protein Function (UniProtKB)

Appears to control physiological cell functions rather than pattern formation during embryogenesis.

(UniProt, O18400)

Summary (Interactive Fly)

paired-like homeobox transcription factor -defines enteroendocrine cells (EEs) in the intestinal epithelium - functions in the midgut in global and regional interstitial stem cell regulation - regulates development of early mesoderm< - differentiates posterior from anterior lateral mesoderm

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Ptx1 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry O18400)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.47

Gene model reviewed during 5.44

Stop-codon suppression (UGA) postulated; FBrf0216884.

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.55

A non-AUG start codon may be used for translation of one or more transcripts of this gene; based on the presence of conserved protein signatures within the 5' UTR without an in-frame AUG (FBrf0243886).

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Ptx1-RA

FBtr0089389

NM_170531

3025

509

Ptx1-RC

FBtr0089391

NM_206591

3571

514

Ptx1-RE

FBtr0330094

NM_001144658

3025

610

Additional Transcript Data and 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 (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Ptx1-PA

FBpp0088412

53.2

509

8.77

FBpp0088974

53.8

514

8.77

FBpp0303127

63.7

610

7.02

B7Z0S4

NP_001138130

ACL83586

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

513 (aa); 62 (kD observed)

(Vorbruggen et al., 1997)

Comments

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Ptx1 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Ptx1_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.43

Transcript Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 10 -- 16

larval central nervous system | segmentally repeated

(Vorbruggen et al., 1997)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4

organism | 0-10% egg length

(Vorbruggen et al., 1997)

organism | posterior

(Vorbruggen et al., 1997)

embryonic stage 4 -- 6

endoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

posterior ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

embryonic stage 7 -- 8

posterior endoderm

(Fisher et al., 2012)

embryonic stage 7 -- 12

posterior midgut primordium

(Vorbruggen et al., 1997)

embryonic stage 9 -- 10

posterior endoderm

(Fisher et al., 2012)

embryonic stage 11 -- 17

embryonic/larval Malpighian tubule

(Vorbruggen et al., 1997)

embryonic stage 12 -- 15

embryonic/larval posterior midgut

(Vorbruggen et al., 1997)

embryonic stage 15 -- 17

embryonic midgut constriction 2

(Vorbruggen et al., 1997)

embryonic stage 16

larval somatic muscle cell | subset

(Vorbruggen et al., 1997)

Bolwig organ primordium

(Vorbruggen et al., 1997)

embryonic brain | restricted

(Vorbruggen et al., 1997)

Additional Descriptive Data

The earliest expression of Ptx1 is detected at the cellular blastoderm stage, and expression persists throughout embryonic development.

(Vorbruggen et al., 1997)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 10 -- 16

larval central nervous system | segmentally repeated

(Vorbruggen et al., 1997)

embryonic stage 11 -- 17

embryonic/larval Malpighian tubule

(Vorbruggen et al., 1997)

embryonic stage 12 -- 15

embryonic/larval posterior midgut

(Vorbruggen et al., 1997)

embryonic stage 15 -- 17

embryonic midgut constriction 2

(Vorbruggen et al., 1997)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 7 -- 12

posterior midgut primordium

(Vorbruggen et al., 1997)

embryonic stage 16

larval somatic muscle cell | subset

(Vorbruggen et al., 1997)

Bolwig organ primordium

(Vorbruggen et al., 1997)

embryonic brain | restricted

(Vorbruggen et al., 1997)

Additional Descriptive Data

Ptx1 expression persists throughout embryonic development, with high levels of expression in the developing midgut and the central nervous system. Later in devlopment, highlevels of expression are detected in the ventral muscles.

(Vorbruggen et al., 1997)

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in nucleus

inferred from direct assay

(Vorbruggen et al., 1997)

Expression Deduced from Reporters

Reporter: P{Ptx1-lacZ.V}

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 16

larval somatic muscle cell | subset

(Vorbruggen et al., 1997)

larval thoracic ventral intersegmental muscle cell

(Vorbruggen et al., 1997)

muscle cell of larval prothoracic ventral intersegmental muscle 3

(Vorbruggen et al., 1997)

muscle cell of mesothoracic ventral oblique muscle 2

(Vorbruggen et al., 1997)

muscle cell of metathoracic ventral oblique muscle 2

(Vorbruggen et al., 1997)

muscle cell of metathoracic ventral oblique muscle 3

(Vorbruggen et al., 1997)

muscle cell of abdominal 1 ventral oblique muscle 5

(Vorbruggen et al., 1997)

muscle cell of ventral oblique muscle 6

(Vorbruggen et al., 1997)

muscle cell of mesothoracic ventral longitudinal muscle 3

(Vorbruggen et al., 1997)

muscle cell of metathoracic ventral longitudinal muscle 3

(Vorbruggen et al., 1997)

muscle cell of metathoracic ventral longitudinal muscle 4

(Vorbruggen et al., 1997)

muscle cell of abdominal 1 ventral longitudinal muscle 3

(Vorbruggen et al., 1997)

muscle cell of abdominal 1 ventral longitudinal muscle 4

(Vorbruggen et al., 1997)

muscle cell of A1-7 ventral longitudinal muscle 4

(Vorbruggen et al., 1997)

muscle cell of abdominal 8 ventral acute muscle 1

(Vorbruggen et al., 1997)

muscle cell of abdominal 8 ventral oblique muscle 1

(Vorbruggen et al., 1997)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Ptx1 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Ptx1

View exonic expression by tissue for Dmel\Ptx1

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0020912

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

43664/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0020912

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020912

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0020912

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG1447

Flygut - An atlas of the Drosophila adult midgut

FBgn0020912

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Ptx1

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 2 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 13 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Ptx1

Transgenic constructs containing regulatory region of Ptx1

Aberrations (Deficiencies and Duplications) ( 11 )

Inferred from experimentation ( 11 )

Gene 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)

Gene not disrupted in

Df(3R)A177der20

(Zilian et al., 1999)

Df(3R)PGX8

(Zilian et al., 1999)

Inferred from location ( 1 )

Df(3R)ED6346

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

partially lethal, with Scer\GAL4^4XHand

Ptx1^VDRC.cUa

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Ptx1^GD4162

viable, with Scer\GAL4^pnr-MD237

Ptx1^GD4162

viable, with Scer\GAL4^tin.CΔ4

Ptx1^GD4162

Other Phenotypes

Allele

increased occurrence of cell division | adult stage, with Scer\GAL4^NP0001

Ptx1^NIG.1447R

short lived, with Scer\GAL4^NP0001

Ptx1^NIG.1447R

visible, with Scer\GAL4^Bx-MS1096

Ptx1^{UAS.ORF.GW.Tag:HA}

Phenotype manifest in

Allele

adult midgut, with Scer\GAL4^NP0001

Ptx1^NIG.1447R

wing, with Scer\GAL4^Bx-MS1096

Ptx1^{UAS.ORF.GW.Tag:HA}

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (167)

Hsap\PITX2

11 of 14

Yes

Hsap\PITX1

9 of 14

Yes

Hsap\PITX3

9 of 14

Yes

2 of 14

2 of 14

2 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Hsap\DRGX

1 of 14

Hsap\DUX1

1 of 14

Yes

Hsap\DUX3

1 of 14

Yes

Hsap\DUX4

1 of 14

Hsap\DUX4L4

1 of 14

Yes

Hsap\DUX4L7

1 of 14

Yes

Hsap\DUX4L9

1 of 14

Yes

Hsap\DUX5

1 of 14

Yes

Hsap\DUXA

1 of 14

Yes

Hsap\DUXB

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (113)

Rnor\Pitx2

10 of 14

Yes

Rnor\Pitx1

8 of 14

Yes

Rnor\Pitx3

8 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Rnor\Hoxa1

1 of 14

Rnor\Hoxa3

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Rnor\LOC691325

1 of 14

Rnor\LOC100361016

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Rnor\Rhox3

1 of 14

Yes

Rnor\Rhox4g

1 of 14

Yes

Rnor\Rhox9

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (142)

Mmus\Pitx2

9 of 14

Yes

Mmus\Pitx1

8 of 14

Yes

Mmus\Pitx3

8 of 14

Yes

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mmus\Hlx

1 of 14

Mmus\Hmx2

1 of 14

Mmus\Hopx

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mmus\Obox3

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mmus\Rhox2a

1 of 14

Yes

Mmus\Rhox2b

1 of 14

Yes

Mmus\Rhox2c

1 of 14

Yes

Mmus\Rhox2d

1 of 14

Yes

Mmus\Rhox2e

1 of 14

Yes

Mmus\Rhox2f

1 of 14

Yes

Mmus\Rhox2g

1 of 14

Yes

Mmus\Rhox2h

1 of 14

Yes

Mmus\Rhox3a2

1 of 14

Yes

Mmus\Rhox3a

1 of 14

Yes

Mmus\Rhox3c

1 of 14

Yes

Mmus\Rhox3e

1 of 14

Yes

Mmus\Rhox3f

1 of 14

Yes

Mmus\Rhox3g

1 of 14

Yes

Mmus\Rhox3h

1 of 14

Yes

Mmus\Rhox4a2

1 of 14

Yes

Mmus\Rhox4a

1 of 14

Yes

Mmus\Rhox4b

1 of 14

Yes

Mmus\Rhox4c

1 of 14

Yes

Mmus\Rhox4d

1 of 14

Yes

Mmus\Rhox4e

1 of 14

Yes

Mmus\Rhox4f

1 of 14

Yes

Mmus\Rhox4g

1 of 14

Yes

Mmus\Rhox6

1 of 14

Yes

Mmus\Rhox7a

1 of 14

Yes

Mmus\Rhox7b

1 of 14

Yes

Mmus\Rhox8

1 of 14

Yes

Mmus\Rhox9

1 of 14

Yes

Mmus\Rhox10

1 of 14

Mmus\Rhox11

1 of 14

Mmus\Rhox12

1 of 14

Yes

Mmus\Rhox13

1 of 14

Mmus\Sebox

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (128)

Xtro\pitx2

10 of 13

Yes

Xtro\pitx3

8 of 13

Yes

Xtro\pitx1

6 of 13

Yes

5 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Xtro\homeobox100496651-provisional

1 of 13

Xtro\hopx

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\hoxc13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\sia3

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (143)

Drer\pitx2

11 of 14

Yes

Drer\pitx1

8 of 14

Yes

Drer\pitx3

8 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (47)

Cele\unc-30

8 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (59)

Agam\AgaP_AGAP000190

11 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (22)

Atha\HDG7

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (3)

Scer\PHO2

2 of 13

Yes

Scer\YHP1

1 of 13

Scer\YOX1

1 of 13

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\phx1

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Ptx1. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (90)

Pph13

4 of 13

3 of 13

CG9876

3 of 13

CG11294

3 of 13

CG32532

3 of 13

eve

3 of 13

eyg

3 of 13

gsb

3 of 13

gsb-n

3 of 13

Gsc

3 of 13

otp

3 of 13

prd

3 of 13

repo

3 of 13

toe

3 of 13

3 of 13

3 of 13

3 of 13

2 of 13

2 of 13

Awh

2 of 13

B-H1

2 of 13

B-H2

2 of 13

bsh

2 of 13

btn

2 of 13

C15

2 of 13

CG18599

2 of 13

CG34031

2 of 13

CG34367

2 of 13

Dbx

2 of 13

Dfd

2 of 13

Dll

2 of 13

Drgx

2 of 13

ems

2 of 13

ftz

2 of 13

H2.0

2 of 13

hbn

2 of 13

ind

2 of 13

lbe

2 of 13

Lim1

2 of 13

Lim3

2 of 13

lms

2 of 13

NK7.1

2 of 13

OdsH

2 of 13

PHDP

2 of 13

Scr

2 of 13

toy

2 of 13

Ubx

2 of 13

unpg

2 of 13

zen2

2 of 13

zen

2 of 13

Abd-B

1 of 13

acj6

1 of 13

bap

1 of 13

bcd

1 of 13

cad

1 of 13

CG4328

1 of 13

CG11085

1 of 13

dve

1 of 13

exex

1 of 13

HGTX

1 of 13

HHEX

1 of 13

Hmx

1 of 13

inv

1 of 13

lab

1 of 13

lbl

1 of 13

Lmx1a

1 of 13

nub

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

tin

1 of 13

tup

1 of 13

vnd

1 of 13

vvl

1 of 13

zfh1

1 of 13

zfh2

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 7 )

Human Ortholog

Disease

Evidence

References

PITX2; paired like homeodomain 2

model of ring dermoid of cornea

IEA

(FlyBase, 2019-)

model of iridogoniodysgenesis syndrome

IEA

(FlyBase, 2019-)

model of anterior segment dysgenesis 4

IEA

(FlyBase, 2019-)

model of Axenfeld-Rieger syndrome type 1

IEA

(FlyBase, 2019-)

PITX1; paired like homeodomain 1

model of clubfoot

IEA

(FlyBase, 2019-)

PITX3; paired like homeodomain 3

model of cataract 11 multiple types

IEA

(FlyBase, 2019-)

model of anterior segment dysgenesis 1

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

PITX2; paired like homeodomain 2

11 of 14

601542

PITX1; paired like homeodomain 1

9 of 14

602149

CLUBFOOT, CONGENITAL, WITH OR WITHOUT DEFICIENCY OF LONG BONES AND/OR MIRROR-IMAGE POLYDACTYLY; CCF

clubfoot

PITX3; paired like homeodomain 3

9 of 14

602669

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

esyN Network Diagram

Show neighbor-neighbor interactions:

Off

Show/hide secondary interactors
(data from AllianceMine provided by esyN)

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Ptx1 - Ada2b

anti tag coimmunoprecipitation, peptide massfingerprinting

(Weake et al., 2011)

Ptx1 - Blos1

two hybrid array

(Shokri et al., 2019)

Ptx1 - Bro

two hybrid array

(Shokri et al., 2019)

Ptx1 - C15

two hybrid array

(Shokri et al., 2019)

Ptx1 - CG10209

two hybrid array

(Shokri et al., 2019)

Ptx1 - CG10654

two hybrid array

(Shokri et al., 2019)

Ptx1 - CG2129

two hybrid array

(Shokri et al., 2019)

Ptx1 - CG31955

two hybrid array

(Shokri et al., 2019)

Ptx1 - CG3815

two hybrid array

(Shokri et al., 2019)

Ptx1 - CG8314

two hybrid array

(Shokri et al., 2019)

Ptx1 - D1

two hybrid array

(Shokri et al., 2019)

Ptx1 - Dif

two hybrid array

(Shokri et al., 2019)

Ptx1 - Eip75B

two hybrid array

(Shokri et al., 2019)

Ptx1 - Hr78

two hybrid array

(Shokri et al., 2019)

Ptx1 - Kr

two hybrid array

(Shokri et al., 2019)

Ptx1 - PolE4

two hybrid array

(Shokri et al., 2019)

Ptx1 - Rel

two hybrid array

(Shokri et al., 2019)

Ptx1 - Sag1

two hybrid array

(Shokri et al., 2019)

Ptx1 - Scm

two hybrid array

(Shokri et al., 2019)

Ptx1 - Ubx

bimolecular fluorescence complementation, fluorescence microscopy

(Bischof et al., 2018)

Ptx1 - abd-A

bimolecular fluorescence complementation, fluorescence microscopy

(Bischof et al., 2018)

Ptx1 - brk

two hybrid array

(Shokri et al., 2019)

Ptx1 - drm

two hybrid array

(Shokri et al., 2019)

Ptx1 - fd3F

two hybrid array

(Shokri et al., 2019)

Ptx1 - foxo

two hybrid array

(Shokri et al., 2019)

Ptx1 - pnt

two hybrid array

(Shokri et al., 2019)

Summary of Genetic Interactions

esyN Network Diagram

Other Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0020912

MIST (protein-protein) - An integrated Molecular Interaction Database

43664

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene_with_stop_codon_read_through

(Jungreis et al., 2011)

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-101

Cytogenetic map

100A7-100B1

Sequence location

3R:30,912,754..30,930,682 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

100A7-100B1

Limits computationally determined from genome sequence between P{lacW}l(3)s2500^s2500 and P{PZ}Aph-4⁰⁷⁰²⁸&P{PZ}dco^rK215

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

100B1-100B2

(Vorbrüggen, 1997.9.10)

100B1-100B2

(determined by in situ hybridisation)

(Vorbruggen et al., 1997)

Experimentally Determined Recombination Data

Location

3-101

(FlyBase, 2016)

3-98.8

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (39)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

40439

w¹¹¹⁸; P{GMR85H03-GAL4}attP2

40440

w¹¹¹⁸; P{GMR85H06-GAL4}attP2

41314

w¹¹¹⁸; P{GMR85H01-GAL4}attP2

46811

w¹¹¹⁸; P{GMR85H04-GAL4}attP2

54342

w¹¹¹⁸; P{GMR85H01-lexA}attP40

65048

w¹¹¹⁸; P{GMR85H03-lexA}attP40

69364

w¹¹¹⁸; P{R85H06-GAL4.DBD}attP2

69916

w¹¹¹⁸; P{R85H01-GAL4.DBD}attP2

FlyORF

F003469

M{UAS-Ptx1.ORF-CC}ZH-21F

1447R-1

v107785

v19831

w¹¹¹⁸ P{GD4162}v19831

More stocks available...

Genomic Clones (17)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (28)

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

RE41906

Other clones

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0020912

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0020912

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Vorbruggen et al., 1997)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

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)

Ptx1 has been cloned and characterised.

(Vorbruggen et al., 1997)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Ptx1 CG1447

(Yao, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (5)

Reported As

Symbol Synonym

CG1447

(Ni et al., 2010.12.1, Keleman et al., 2009.8.5)

D-Ptx1

(Zilian et al., 1999, Vorbruggen et al., 1997)

Ptx

(Popovici et al., 2001)

ptx1

(Vorbrüggen, 1997.9.10)

Name Synonyms

Ptx1

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 47 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

43664

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

O18400

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

O18400

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

O18400

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0020912

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

43664/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0020912

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0020912

FlyMine - An integrated database for Drosophila genomics

FBgn0020912

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

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG1447

MARRVEL_MODEL - MARRVEL (model organism gene)

43664

Linkouts

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0020912

DroID - A comprehensive database of gene and protein interactions.

FBgn0020912

DRSC - Results frm RNAi screens

FBgn0020912

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Ptx1_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020912

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0020912

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG1447

Flygut - An atlas of the Drosophila adult midgut

FBgn0020912

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC032174

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

MIST (protein-protein) - An integrated Molecular Interaction Database

43664

References (78)

The following external sites may use different assemblies or annotations than FlyBase.

-0.43

Report Sections