FlyBase Gene Report: Dmel\PH4αEFB

OXIDOREDUCTASES ACTING ON SINGLE DONORS WITH INCORPORATION OF TWO ATOMS OF OXYGEN -: Oxidoreductases acting on single donors with incorporation of two atoms of oxygen, include dehydrogenases that oxidize single hydrogen or electron donors with the reduction of two oxygen atoms.
PEPTIDYL-PROLINE DIOXYGENASES -: Peptidyl-proline dioxygenases catalyze the hydroxylation of peptidyl L-proline to peptidyl hydroxy-L-proline, where 2-oxoglutarate and one other act as hydrogen or electron donors with incorporation of one atom of oxygen into each donor.

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\PH4αEFB or the JBrowse view of Dmel\PH4αEFB 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

Comments on Gene Model

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

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)

PH4αEFB-RA

FBtr0085650

NM_170492

2248

550

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

PH4αEFB-PA

FBpp0085012

63.1

550

5.16

NP_733371

AAF57053

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

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\PH4αEFB using the Feature Mapper tool.

External Data

Crossreferences

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

PH4alphaEFB_1

Linkouts

Gene Ontology (8 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

iron ion binding

inferred from electronic annotation with InterPro:IPR006620

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

L-ascorbic acid binding

inferred from electronic annotation with InterPro:IPR006620

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen

inferred from electronic annotation with InterPro:IPR013547

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

contributes_to procollagen-proline 4-dioxygenase activity

inferred from biological aspect of ancestor with PANTHER:PTN001653950

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

oxidation-reduction process

inferred from electronic annotation with InterPro:IPR005123, InterPro:IPR006620, InterPro:IPR013547

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

peptidyl-proline hydroxylation to 4-hydroxy-L-proline

inferred from biological aspect of ancestor with PANTHER:PTN001653950

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

endomembrane system

inferred from high throughput direct assay

(Tan et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

endoplasmic reticulum

inferred from biological aspect of ancestor with PANTHER:PTN001653950

(assigned by GO_Central )

(Gaudet et al., 2011)

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 7 -- 8

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

head mesoderm

(Fisher et al., 2012)

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

dorsal epidermis primordium

(Fisher et al., 2012)

plasmatocyte primordium

Comment: reported as plasmatocytes anlage

(Fisher et al., 2012)

ventral epidermis primordium

(Fisher et al., 2012)

ventral nerve cord primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic dorsal epidermis

(Fisher et al., 2012)

embryonic ventral epidermis

(Fisher et al., 2012)

embryonic/larval fat body

(Fisher et al., 2012)

embryonic/larval muscle system

(Fisher et al., 2012)

embryonic/larval somatic muscle

(Fisher et al., 2012)

plasmatocyte

(Fisher et al., 2012)

oogenesis stage S7 -- S8 & adult stage | female

follicle cell

(Lerner et al., 2013)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

endomembrane system

inferred from high throughput direct assay

(Tan et al., 2009)

Expression Deduced from Reporters

Reporter: PBac{681.P.FSVS-1}PH4αEFB^CPTI002064

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult brain cell body rind

(Knowles-Barley, 2011.8.24)

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\PH4αEFB 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\PH4αEFB

View exonic expression by tissue for Dmel\PH4αEFB

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

FBgn0039776

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

FBgn0039776

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG31022-RA

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

CG31022

Flygut - An atlas of the Drosophila adult midgut

FBgn0039776

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\PH4αEFB

Stages(s) 4-6
Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 12 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of PH4αEFB

Transgenic constructs containing regulatory region of PH4αEFB

Deletions and Duplications ( 3 )

Disrupted in

Df(3R)Exel6215

(Ryder, 2004.4.26)

Df(3R)Exel6216

(Abrams et al., 2006, Ryder, 2004.4.26)

Partially disrupted in

Df(3R)slab-3

(Rohrbough et al., 2004)

Phenotypes

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

Lethality

Allele

viable

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

PH4αEFB^GD771

viable, with Scer\GAL4^Mef2.PR

PH4αEFB^GD771

viable, with Scer\GAL4^pnr-MD237

PH4αEFB^GD771

viable, with Scer\GAL4^tin.CΔ4

PH4αEFB^GD771

Sterility

Allele

fertile

PH4αEFB^EY13295

Other Phenotypes

Allele

exocytosis defective | third instar larval stage, with Scer\GAL4^{SPARC-MI00329-GAL4}

PH4αEFB^HMS00567

Phenotype manifest in

Allele

embryonic/larval fat body | third instar larval stage, with Scer\GAL4^{SPARC-MI00329-GAL4}

PH4αEFB^HMS00567

extracellular matrix | third instar larval stage, with Scer\GAL4^{SPARC-MI00329-GAL4}

PH4αEFB^HMS00567

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\P4HA1

15 of 15

Yes

Hsap\P4HA2

13 of 15

Yes

Hsap\P4HA3

3 of 15

Hsap\P4HTM

2 of 15

Yes

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\P4ha1

15 of 15

Yes

Mmus\P4ha2

13 of 15

Yes

Mmus\P4ha3

3 of 15

Mmus\P4htm

1 of 15

Yes

Rattus norvegicus (Norway rat) (4)

Rnor\P4ha1

11 of 13

Yes

Rnor\P4ha2

10 of 13

Yes

Rnor\P4ha3

2 of 13

Rnor\P4htm

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (5)

Xtro\p4ha1

8 of 12

Yes

Xtro\p4ha2

7 of 12

Yes

Xtro\LOC100492280

2 of 12

Yes

Xtro\LOC101734880

1 of 12

Yes

Xtro\p4ha3

1 of 12

Danio rerio (Zebrafish) (7)

Drer\p4ha1a

13 of 15

Yes

Drer\p4ha1b

13 of 15

Yes

Drer\p4ha2

10 of 15

Yes

Drer\zgc:152670

4 of 15

Yes

Drer\p4ha3

3 of 15

Yes

Drer\p4htm

2 of 15

Yes

Drer\zgc:158254

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (7)

Cele\phy-2

13 of 15

Yes

Cele\dpy-18

12 of 15

Yes

Cele\phy-4

3 of 15

Yes

2 of 15

2 of 15

2 of 15

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (14)

Atha\AT1G20270

4 of 9

Yes

Atha\AT3G28480

4 of 9

Yes

Atha\AT3G28490

4 of 9

Yes

Atha\AT4G35810

4 of 9

Yes

Atha\AT5G66060

4 of 9

Yes

Atha\P4H5

4 of 9

Yes

Atha\AT4G33910

3 of 9

Yes

Atha\AT4G35820

3 of 9

Yes

Atha\AT5G18900

3 of 9

Yes

Atha\AT-P4H-1

3 of 9

Atha\P4H2

3 of 9

Yes

Atha\P4H13

2 of 9

Atha\AT4G25600

1 of 9

Yes

Atha\AT5G51880

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091905J7 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA15946

Drosophila persimilis

Dper\GL13463

Drosophila willistoni

Dwil\GK14136

Drosophila virilis

Dvir\GJ24502

Drosophila mojavensis

Dmoj\GI24860

Drosophila grimshawi

Dgri\GH12976

Drosophila grimshawi

Dgri\GH14110

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091502Y8 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17015063

Glossina morsitans

Tsetse fly

Gmor\GMOY000555

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_00108

Mayetiola destructor

Hessian fly

Mdes\Mdes000602

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL007038

Anopheles darlingi

American malaria mosquito

Adar\ADAC004511

Anopheles gambiae

Malaria mosquito

Agam\AGAP000971

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ017131

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W049Y )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA010566

Danaus plexippus

Monarch butterfly

Dple\DPOGS214069-PA

Danaus plexippus

Monarch butterfly

Dple\DPOGS214068-PA

Apis florea

Little honeybee

Aflo\2278767236

Apis mellifera

Western honey bee

Amel\GB41280

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP24918

Bombus terrestris

Buff-tailed bumblebee

Bter\15206083

Linepithema humile

Argentine ant

Lhum\LH15922

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:002922

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG010069

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_08163

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_05466

Tribolium castaneum

Red flour beetle

Tcas\TC011322

Tribolium castaneum

Red flour beetle

Tcas\TC011321

Pediculus humanus

Human body louse

Phum\PHUM445570

Rhodnius prolixus

Kissing bug

Rpro\RPRC010023

Cimex lectularius

Bed bug

Clec\CLEC002336

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI007079

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_04204

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X046K )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR002774

Ixodes scapularis

Black-legged tick

Isca\ISCW001441

Stegodyphus mimosarum

African social velvet spider

Smim\KFM72508.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM76130.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur09g01750

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_45616

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_208740

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_309105

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_309107

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0749 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-P4ha1_1

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-P4ha1

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000003807

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000017951

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000012078

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000020548

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000012392

Gallus gallus

Domestic chicken

Ggal\P4HA1

Gallus gallus

Domestic chicken

Ggal\P4HA2

Gallus gallus

Domestic chicken

Ggal\P4HA3

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (25)

Gene Symbol

Score

Source

Alignment

6 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

5 of 10

4 of 10

4 of 10

4 of 10

4 of 10

4 of 10

4 of 10

4 of 10

4 of 10

3 of 10

3 of 10

2 of 10

1 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 ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 1 )

Allele

Disease

Interaction

References

PH4αEFB^GD771

ameliorates collagen disease

modeled by shi^JF03133

(Zang et al., 2015)

modeled by cact^GL00627

(Zang et al., 2015)

modeled by Tl^10b.UAS

(Zang et al., 2015)

Disease Associations of Human Orthologs (via DIOPT v7.1 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?

P4HA1; prolyl 4-hydroxylase subunit alpha 1

15 of 15

176710

P4HA2; prolyl 4-hydroxylase subunit alpha 2

13 of 15

600608

MYOPIA 25, AUTOSOMAL DOMINANT; MYP25

P4HA3; prolyl 4-hydroxylase subunit alpha 3

3 of 15

608987

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

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

PH4αEFB - CG1092

experimental knowledge based

(Guruharsha et al., 2011)

PH4αEFB - CG11060

experimental knowledge based

(Guruharsha et al., 2011)

PH4αEFB - Fer1HCH

experimental knowledge based

(Guruharsha et al., 2011)

PH4αEFB - Pdi

experimental knowledge based

(Guruharsha et al., 2011)

PH4αEFB - Raf

anti tag coimmunoprecipitation, peptide massfingerprinting

(Friedman et al., 2011)

PH4αEFB - S6kII

anti tag coimmunoprecipitation, Identification by mass spectrometry

(Vinayagam et al., 2016)

PH4αEFB - dos

anti tag coimmunoprecipitation, peptide massfingerprinting

(Friedman et al., 2011)

PH4αEFB - ksr

anti tag coimmunoprecipitation, peptide massfingerprinting

(Friedman et al., 2011)

PH4αEFB - wts

anti tag coimmunoprecipitation, peptide massfingerprinting

(Kwon et al., 2013)

Summary of Genetic Interactions

esyN Network Diagram

esyN Network Key:

Suppression

Enhancement

View in Interactions Browser

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

shi

suppressible

PH4αEFB

(Zang et al., 2015)

suppressible

PH4αEFB

(Zang et al., 2015)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

68473

DroID - A comprehensive database of gene and protein interactions.

FBgn0039776

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

43620

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

PH4alphaEFB

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

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

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-100

Cytogenetic map

99F6-99F6

Sequence location

3R:30,466,050..30,485,799 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

99F6-99F6

Limits computationally determined from genome sequence between P{PZ}ncd⁰⁵⁸⁸⁴ and P{lacW}l(3)s2500^s2500

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-100

(FlyBase, 2016)

3-98.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (11)

Bloomington

26095

w¹¹¹⁸; Mi{ET1}PH4αEFB^MB08046

21090

y¹ w^67c23; P{EPgy2}PH4αEFB^EY13295

23264

y¹ w^*; P{UASp-YFP.Rab14.S49N}PH4αEFB⁰²

33695

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00567}attP2

33896

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00835}attP2

36435

y¹ w^*; Mi{MIC}PH4αEFB^MI02864/TM3, Sb¹ Ser¹

43854

y¹ w^*; Mi{MIC}PH4αEFB^MI06111/TM3, Sb¹ Ser¹

51249

y¹ w^*; Mi{MIC}PH4αEFB^MI09044/TM3, Sb¹ Ser¹

76678

y¹ w^*; Mi{Trojan-GAL4.2}PH4αEFB^{MI06111-TG4.2}/TM3, Sb¹ Ser¹

Kyoto

115604

w¹¹¹⁸; PBac{681.P.FSVS-1}PH4αEFB^CPTI002064

VDRC

v2464

w¹¹¹⁸; P{GD771}v2464

Genomic Clones (21)

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

cDNA Clones (41)

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 sequences

BDGP DGC clones

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.

FBgn0039776

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0039776

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

43620

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Manning et al., 2017)

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: PH4αEFB CG1473

(Abrams, 2002.3.26, FlyBase, 1996-)

Source for database merge of

Source for merge of: PH4αEFB BcDNA:SD05564

(FlyBase, 1996-)

Source for merge of: CG12088 CG1473

(Abrams, 2002.3.26)

Source for merge of: CG1473 CG12088

(FlyBase, 1996-)

Additional comments

Annotations CG12088, CG1473 merged as CG31022 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Source for merge of CG1473 CG12088 was a shared cDNA ( date:010720 ).

(FlyBase, 1996-)

Source for merge of PH4αEFB BcDNA:SD05564 was a shared cDNA ( date:020730 ).

(FlyBase, 1996-)

Source for identity of PH4αEFB CG1473 was sequence comparison ( date:020425 ).

(FlyBase, 1996-)

Other Comments

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 38 )

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.

43620

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

Q9VA69

Other crossreferences

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0039776

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

FBgn0039776

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

PH4alphaEFB_1

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

CG31022

Flygut - An atlas of the Drosophila adult midgut

FBgn0039776

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

43620

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

TC011321

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

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

Dmel_CG31022

modMine - A data warehouse for the modENCODE project

FBgn0039776

Linkouts

ApoDroso - Functional genomic database for photoreceptor development, survival and function

10349-prolyl-4-hydroxylasealphaEFB[j8B9]

BioGRID - A database of protein and genetic interactions.

68473

DroID - A comprehensive database of gene and protein interactions.

FBgn0039776

DRSC - Results frm RNAi screens

FBgn0039776

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

FBgn0039776

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG31022-RA

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0039776

FlyMine - An integrated database for Drosophila genomics

FBgn0039776

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

43620

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

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

PH4alphaEFB

Synonyms and Secondary IDs (10)

Reported As

Symbol Synonym

BcDNA:SD05564

(Abrams and Andrew, 2002)

CG12088

(Abrams, 2002.3.26)

CG1473

(Abrams, 2002.3.26)

CG31022

(Christis and Munro, 2012, Ni et al., 2010.12.1)

PH4-aEFB

(Pastor-Pareja and Xu, 2011)

PH4alphaEFB

(Gene Disruption Project members, 2016-, Ashwal-Fluss et al., 2014, Kwon et al., 2013, Kwon et al., 2013, Friedman et al., 2011, Tan et al., 2009, Ni et al., 2006, Rohrbough et al., 2004, Giot et al., 2003)

PH4α-EFB

(Pastor-Pareja and Xu, 2011)

PH4αEFB

(Wilmes et al., 2018, Manning et al., 2017, Van De Bor et al., 2015, Zang et al., 2015, Lerner et al., 2013, Cherbas et al., 2011, Pastor-Pareja and Xu, 2011, White et al., 2011, Zhang et al., 2007, Abrams et al., 2006)

Name Synonyms

prolyl-4-hydroxylase-alpha EFB

(Abrams and Andrew, 2002)

propyl-4-hydroxylase-alpha EFB

(Cherbas et al., 2011)

Secondary FlyBase IDs

FBgn0039775
FBgn0046215
FBgn0051022

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (67)

Report Sections

Open Close