FlyBase Gene Report: Dmel\phu

General Information

Symbol

Dmel\phu

Species

D. melanogaster

Name

phurba tashi

Annotation Symbol

CG8147

Feature Type

protein_coding_gene

FlyBase ID

FBgn0043791

Gene Model Status

Current

Stock Availability

3 publicly available

Enzyme Name (EC)

Alkaline phosphatase (3.1.3.1)

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

BEST:LD38109

Key Links

Genomic Location

Cytogenetic map

85D18-85D18

Sequence location

3R:9,494,801..9,496,723 [+]

Recombination map

3-48

RefSeq locus

NT_033777 REGION:9494801..9496723

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (5 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables alkaline phosphatase activity

inferred from biological aspect of ancestor with PANTHER:PTN000174527

(assigned by GO_Central )

(Gaudet et al., 2011)

inferred from sequence or structural similarity with HGNC:439

(FlyBase Curators, 2008-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in response to hypoxia

inferred from mutant phenotype

(Jha et al., 2016)

involved_in response to nicotine

inferred from expression pattern

(Passador-Gurgel et al., 2007)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in dephosphorylation

inferred from sequence or structural similarity with HGNC:439

(FlyBase Curators, 2008-)

inferred from biological aspect of ancestor with PANTHER:PTN000174527

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in cell surface

inferred from sequence or structural similarity with HGNC:439

(FlyBase Curators, 2008-)

Gene Group (FlyBase)

ALKALINE PHOSPHATASES

Protein Family (UniProt)

Protein Signatures (InterPro)

Catalytic Activity (EC)

Experimental Evidence

Predictions / Assertions

A phosphate monoester + H(2)O = an alcohol + phosphate (3.1.3.1)

Summaries

Gene Group (FlyBase)

ALKALINE PHOSPHATASES -: Alkaline phosphatases function best in alkaline environments, catalyzing the hydrolysis of monoesters of phosphoric acid and a transphosphorylation reaction in the presence of large concentrations of phosphate acceptors. With few exceptions, they are homodimeric enzymes and each catalytic site contains three metal ions, i.e., two Zn and one Mg, necessary for enzymatic activity. They have broad substrate specificity. (Adapted from PMID:18404473.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\phu 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 New Section

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9VHD0)

If you don't see the viewer to the right, 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.

Comments on Gene Model

Gene model reviewed during 5.44

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

phu-RA

FBtr0082060

NM_141640

1862

546

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

phu-PA

FBpp0081538

59.5

546

6.38

NP_649897

AAF54384

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

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

Q9VHD0

Mapped Features

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

External Data

Crossreferences

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

CG8147_1

Linkouts

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 4 -- 6

anterior endoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

dorsal ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

endoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

hindgut anlage in statu nascendi

(Fisher et al., 2012)

posterior ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 5 -- 7

amnioserosa anlage

(Dominguez et al., 2016)

dorsal ectoderm

(Dominguez et al., 2016)

embryonic stage 7 -- 8

anterior endoderm anlage

(Fisher et al., 2012)

dorsal ectoderm

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 9 -- 10

amnioserosa

(Fisher et al., 2012)

anterior endoderm

(Fisher et al., 2012)

head mesoderm

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 11 -- 12

amnioserosa

(Fisher et al., 2012)

anterior midgut primordium

(Fisher et al., 2012)

fat body/gonad primordium

(Fisher et al., 2012)

plasmatocyte primordium

Comment: reported as plasmatocytes anlage

(Fisher et al., 2012)

posterior midgut primordium

(Fisher et al., 2012)

procrystal cell

(Fisher et al., 2012)

stomatogastric nervous system primordium

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 11 -- 13

cardiogenic mesoderm

(Ahmad et al., 2012)

embryonic stage 13 -- 16

embryonic/larval dorsal vessel

(Fisher et al., 2012)

embryonic/larval fat body

(Fisher et al., 2012)

embryonic/larval plasmatocyte

(Fisher et al., 2012)

yolk nucleus

(Fisher et al., 2012)

embryonic stage 15

embryonic/larval ostium

(Chen et al., 2016)

embryonic stage 16

embryonic/larval ostium

(Trujillo et al., 2016)

embryonic stage 16 -- 17

embryonic/larval heart

(Ahmad et al., 2012)

embryonic/larval cardial cell | subset

(Ahmad et al., 2012)

Additional Descriptive Data

Marker for

embryonic/larval ostium

(Chen et al., 2016)

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\phu in GBrowse 2

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

View exonic expression by developmental stage for Dmel\phu

View exonic expression by tissue for Dmel\phu

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

FBgn0043791

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

41135/tissue=All

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

FBgn0043791

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0043791

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

FBgn0043791

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

CG8147

Flygut - An atlas of the Drosophila adult midgut

FBgn0043791

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\phu

Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of phu

Transgenic constructs containing regulatory region of phu

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Lethality

Allele

lethal - all die during P-stage, with Scer\GAL4^Mef2.PR

phu^GD1305

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

phu^GD1305

viable, with Scer\GAL4^pnr-MD237

phu^GD1305

viable, with Scer\GAL4^tin.CΔ4

phu^GD1305

Sterility

Allele

female semi-sterile, with Scer\GAL4^{VP16.mat.αTub67C}

phu^HMS02698

Other Phenotypes

Allele

abnormal stress response, with Scer\GAL4^da.G32

phu^GD1305

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\ALPG

12 of 15

Yes

Hsap\ALPI

12 of 15

Yes

Hsap\ALPL

12 of 15

Yes

Hsap\ALPP

11 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Akp3

11 of 15

Yes

Mmus\Alpl

11 of 15

Yes

Mmus\Alpi

10 of 15

Mmus\Alppl2

10 of 15

Yes

Rattus norvegicus (Norway rat) (5)

Rnor\Alpl

11 of 13

Yes

Rnor\Alpi

10 of 13

Yes

Rnor\Akp3

7 of 13

Rnor\Alpg

6 of 13

Yes

Rnor\Alpp

6 of 13

Yes

Xenopus tropicalis (Western clawed frog) (3)

Xtro\alpl

8 of 12

Yes

Xtro\alpi.1

7 of 12

Xtro\alpi.2

2 of 12

Danio rerio (Zebrafish) (4)

Drer\alpi.2

11 of 15

Yes

Drer\alpl

11 of 15

Yes

Drer\alp3

9 of 15

Yes

Drer\alpi.1

6 of 15

Caenorhabditis elegans (Nematode, roundworm) (0)

No records found.

Arabidopsis thaliana (thale-cress) (0)

No records found.

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\PHO8

9 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\SPBC14F5.13c

7 of 12

Yes

Other Organism Orthologs (via OrthoDB)

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (12)

Gene Symbol

Score

Source

Alignment

8 of 10

7 of 10

7 of 10

7 of 10

7 of 10

7 of 10

7 of 10

6 of 10

6 of 10

6 of 10

6 of 10

4 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 3 )

Human Ortholog

Disease

Evidence

References

ALPL; alkaline phosphatase, biomineralization associated

model of infantile hypophosphatasia

IEA

(FlyBase, 2019-)

model of adult hypophosphatasia

IEA

(FlyBase, 2019-)

model of childhood hypophosphatasia

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v8.0 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?

ALPG; alkaline phosphatase, germ cell

12 of 15

171810

ALPI; alkaline phosphatase, intestinal

12 of 15

171740

ALPL; alkaline phosphatase, biomineralization associated

12 of 15

171760

ALPP; alkaline phosphatase, placental

11 of 15

171800

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

Interactions Browser

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

66296

DroID - A comprehensive database of gene and protein interactions.

FBgn0043791

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

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0043791

External Data

Linkouts

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-48

Cytogenetic map

85D18-85D18

Sequence location

3R:9,494,801..9,496,723 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

85D18-85D18

Limits computationally determined from genome sequence between P{PZ}ps¹⁰⁶¹⁵&P{PZ}Ras85D⁰⁶⁶⁷⁷ and P{EP}CG9393^EP3122

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-48

(FlyBase, 2016)

3-46.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

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

Bloomington

43314

y¹ sc^* v¹ sev²¹; P{TRiP.HMS02698}attP2

VDRC

v100052

P{KK103205}VIE-260B

v2892

w¹¹¹⁸; P{GD1305}v2892

Genomic Clones (20)

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

cDNA Clones (20)

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

LD38109

Other clones

DPiM_LD38109

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.

FBgn0043791

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0043791

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

41135

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: phu CG8147

(Jha et al., 2016)

Source for database merge of

Source for merge of: BEST:LD38109 CG8147

(FlyBase, 1996-)

Additional comments

Source for merge of BEST:LD38109 CG8147 was a shared cDNA ( date:030206 ).

(FlyBase, 1996-)

Other Comments

Identified as a candidate gene for hypoxia-specific selection (via an experimental evolution paradigm) that is also differentially expressed between control and hypoxia-adapted larvae.

(Jha et al., 2016)

Identified as a gene with significant level of mRNA cycling as assessed by expression analysis using high density oligonucleotide arrays with probe generated from adult heads harvested over six time points over the course of a day. Showed cycling in Canton S and low expression in Clk mutants in microarray experiments. Identified in S2/cycloheximide assay as a direct target of Clk mediated transcriptional regulation.

(McDonald and Rosbash, 2001)

Origin and Etymology

Discoverer

Etymology

Named 'phurba tashi' after the legendary Sherpa mountaineer, as RNAi-mediated knockdown of this gene's expression significantly enhances survival in severe hypoxia.

(Jha et al., 2016)

Identification

External Crossreferences and Linkouts ( 45 )

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.

41135

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.

Q9VHD0

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

Q9VHD0

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.

Q9VHD0

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0043791

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

FBgn0043791

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

41135/tissue=All

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

FBgn0043791

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

CG8147_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0043791

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

FBgn0043791

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

CG8147

Flygut - An atlas of the Drosophila adult midgut

FBgn0043791

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0043791

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

41135

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

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

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

Dmel_CG8147

MARRVEL_MODEL - MARRVEL (model organism gene)

41135

modMine - A data warehouse for the modENCODE project

FBgn0043791

Linkouts

BioGRID - A database of protein and genetic interactions.

66296

DroID - A comprehensive database of gene and protein interactions.

FBgn0043791

DRSC - Results frm RNAi screens

FBgn0043791

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0043791

FlyMine - An integrated database for Drosophila genomics

FBgn0043791

KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.

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

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Synonyms and Secondary IDs (8)

Reported As

Symbol Synonym

154821_at

(Kristensen et al., 2005)

Alp3

(Marygold, 2015.6.26)

BEST:LD38109

(Zou et al., 2000)

CG8147

(Wu et al., 2020, Yurkevych et al., 2020, Maitra et al., 2019, Ruppert et al., 2017, Sun et al., 2017, Trienens et al., 2017, Chen et al., 2016, Dominguez et al., 2016, Jha et al., 2016, Palu and Thummel, 2016, Trujillo et al., 2016, Bartok et al., 2015, Ruiz et al., 2014, Sopko et al., 2014, Whitaker et al., 2014, Attrill and Antonazzo, 2013.6.25, Kemp et al., 2013, Ahmad et al., 2012, Chintapalli et al., 2012, Farhadian et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Napoletano et al., 2011, Dalton et al., 2010, Kong et al., 2010, Ni et al., 2010.12.1, Fujikawa et al., 2009, Keleman et al., 2009.8.5, Leatherbarrow and Halfon, 2009, Southall and Brand, 2009, Yamamoto et al., 2009.12.23, Haussmann et al., 2008, Goldman and Arbeitman, 2007, Passador-Gurgel et al., 2007, Tomancak et al., 2007, Biemar et al., 2006, Kristensen et al., 2006, Brodsky et al., 2004)

phu

(Rivas et al., 2021, Wang et al., 2021, Zhou et al., 2021, Mossman et al., 2017, Bischof and FlyORF project members, 2014.6.20)

Name Synonyms

Alkaline phosphatase 3

(Marygold, 2015.6.26)

Phurba Tashi

(Jha et al., 2016)

phurba tashi

Secondary FlyBase IDs