FlyBase Gene Report: Dmel\spir

General Information

Symbol

Dmel\spir

Species

D. melanogaster

Name

spire

Annotation Symbol

CG10076

Feature Type

protein_coding_gene

FlyBase ID

FBgn0003475

Gene Model Status

Current

Stock Availability

50 publicly available

Gene Summary

spire (spir) encodes a de novo WH2 domain-containing actin nucleation factor that polymerizes linear actin filaments, as well as bundles and/or crosslinks actin and microtubules. It is a downstream effector of the product of Rho1 and is involved in many cytoskeleton related developmental processes, including ooplasmic streaming, nurse cell architecture, and endocytosis. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
UniProtKB
Red Book
Interactive Fly

Also Known As

p150-Spir, 38C.37, 38C.34

Key Links

Genomic Location

Cytogenetic map

38C5-38C5

Sequence location

2L:20,311,219..20,348,386 [+]

Recombination map

2-54

RefSeq locus

NT_033779 REGION:20311219..20348386

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 (25 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables microtubule binding

inferred from mutant phenotype

(Rosales-Nieves et al., 2006)

enables protein binding

inferred from physical interaction with FLYBASE:mon2; FB:FBgn0031985

(Tanaka et al., 2011)

inferred from physical interaction with FLYBASE:wash; FB:FBgn0033692

(Liu et al., 2009)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables actin binding

traceable author statement

(Johnstone and Lasko, 2001)

inferred from electronic annotation with InterPro:IPR003124, InterPro:IPR029901

(InterPro Project Members, 2004-)

inferred from electronic annotation with InterPro:IPR029901

(InterPro Project Members, 2004-)

enables microtubule binding

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

Biological Process (19 terms)

Terms Based on Experimental Evidence (10 terms)

CV Term

Evidence

References

involved_in actin filament network formation

inferred from mutant phenotype

(Quinlan, 2013)

involved_in actin filament organization

inferred from mutant phenotype

(Dahlgaard et al., 2007)

involved_in actin filament-based process

inferred from direct assay

(Rosales-Nieves et al., 2006)

involved_in actin nucleation

inferred from direct assay

(Rosales-Nieves et al., 2006)

involved_in chorion-containing eggshell formation

inferred from high throughput mutant phenotype

(Schupbach and Wieschaus, 1991)

involved_in oocyte karyosome formation

inferred from mutant phenotype

(Djagaeva et al., 2005)

involved_in oogenesis

inferred from mutant phenotype

(Quinlan, 2013)

involved_in pole plasm assembly

inferred from high throughput mutant phenotype

(Schupbach and Wieschaus, 1991)

inferred from mutant phenotype

(Raff et al., 1990)

involved_in pole plasm RNA localization

inferred from mutant phenotype

(Raff et al., 1990)

involved_in regulation of cytoskeleton organization

inferred from direct assay

(Liu et al., 2009)

Terms Based on Predictions or Assertions (13 terms)

CV Term

Evidence

References

involved_in actin cytoskeleton organization

traceable author statement

(Ciccarelli et al., 2003)

involved_in actin filament network formation

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in actin filament polymerization

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in actin nucleation

inferred from electronic annotation with InterPro:IPR029901

(InterPro Project Members, 2004-)

involved_in cleavage furrow formation

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in establishment of meiotic spindle localization

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in Golgi vesicle transport

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in intracellular transport

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in oogenesis

traceable author statement

(Wylie, 1999)

involved_in polar body extrusion after meiotic divisions

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

involved_in pole plasm assembly

traceable author statement

(Mahowald, 2001, Wilsch-Brauninger et al., 1997)

non-traceable author statement

(Williamson and Lehmann, 1996)

involved_in pole plasm oskar mRNA localization

traceable author statement

(Johnstone and Lasko, 2001)

involved_in vesicle-mediated transport

traceable author statement

(Ciccarelli et al., 2003)

inferred from electronic annotation with InterPro:IPR029901

(InterPro Project Members, 2004-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cell cortex

inferred from direct assay

(Quinlan, 2013, Rosales-Nieves et al., 2006)

located_in cytoplasm

inferred from direct assay

(Rosales-Nieves et al., 2006)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in cell cortex

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

is_active_in cytoplasmic vesicle membrane

inferred from biological aspect of ancestor with PANTHER:PTN001085126

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the spire family. (Q9U1K1)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Protein Function (UniProtKB)

Acts as an actin nucleation factor, remains associated with the slow-growing pointed end of the new filament. Promotes dissociation of capu from the barbed end of actin filaments. Involved in intracellular vesicle transport along actin fibers, providing a novel link between actin cytoskeleton dynamics and intracellular transport. Required for localization of determinants within the developing oocyte to the posterior pole and to the dorsal anterior corner. Links Rho family signaling and Jnk function to the actin cytoskeleton.

(UniProt, Q9U1K1)

Phenotypic Description (Red Book; Lindsley and Zimm 1992)

spir: spire (T. Schupbach)

Maternal-effect lethal; homozygous females lay eggs which sometimes (5-10%) have a "peak" (spire) of dorsal appendage material sitting over the anterior end of the egg, instead of two distinct dorsal appendages. Such eggs are similar to eggs formed by the female-sterile mutation fs(1)K10, but the extent of dorsal appendage material on spir eggs is much more variable than that of fs(1)K10 eggs. Mutant females produce embryos lacking polar granules, pole cells, and normal abdominal segmentation. In combination with Bic-D, however, abdominal segmentation does develop in the anterior half of the embryo; improper localization of abdominal determinants also indicated by the lack of posterior localization of vasa protein. Cellularization of the blastoderm irregularly defective with nuclei of different sizes and densities. Resemble embryos formed by other grandchildless-knirps-like mutations, such as vasa or tudor, but in addition, some of the embryos from spire females appear also to be dorsalized.

Summary (Interactive Fly)

Wiscott-Aldrich syndrome protein (WASP) homology domain 2 (WH2) family - a maternal effect locus that affects both the dorsal-ventral and anterior-posterior axes of the Drosophila egg and embryo - required for localization of determinants within the developing oocyte

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\spir 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 Q9U1K1)

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

PDB - An information portal to biological macromolecular structures

Comments on Gene Model

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

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

Gene model includes transcripts encoding non-overlapping portions of the full CDS.

Gene model reviewed during 5.49

Sequence Ontology: Class of Gene

gene_with_edited_transcript

(Graveley et al., 2011, Stapleton et al., 2006)

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

spir-RA

FBtr0081352

NM_165323

4881

1020

spir-RB

FBtr0081353

NM_080115

4794

991

spir-RC

FBtr0081355

NM_165325

3437

625

spir-RD

FBtr0081354

NM_165324

2666

585

spir-RE

FBtr0301884

NM_001169549

4791

990

spir-RF

FBtr0306556

NM_001259172

4875

1018

spir-RG

FBtr0307893

NM_001259173

2669

586

spir-RH

FBtr0307894

NM_001259174

2182

488

spir-RI

FBtr0339233

NM_001299170

2212

498

spir-RJ

FBtr0339234

NM_001299171

5598

586

Additional Transcript Data and Comments

Reported size (kB)

4.5, 2.7 (northern blot)

(Wellington et al., 1999)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

spir-PA

FBpp0080884

114.9

1020

6.91

FBpp0080885

111.5

991

7.09

NP_524854

AAN11070

spir-PC

FBpp0080887

69.4

625

9.36

FBpp0080886

66.4

585

6.17

FBpp0291098

111.3

990

7.14

FBpp0297511

114.7

1018

6.96

FBpp0300327

66.5

586

6.12

FBpp0300328

55.0

488

5.92

FBpp0308340

56.3

498

5.98

FBpp0308341

66.5

586

6.12

M9NFB6

NP_001286100

AHN54614

Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

586 aa isoforms: spir-PG, spir-PJ

Additional Polypeptide Data and Comments

Reported size (kDa)

990, 585 (aa)

(Wellington et al., 1999)

Comments

External Data

Domain

Binds to actin monomers via the WH2 domain.

The Spir-box targets binding to intracellular membrane structures.

(UniProt, Q9U1K1)

Subunit Structure (UniProtKB)

Interacts with bsk, Rho1, Rac1, Cdc42 and wash. Interacts with capu.

(UniProt, Q9U1K1)

Post Translational Modification

Phosphorylated by Jnk kinase (bsk).

(UniProt, Q9U1K1)

Crossreferences

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

PDB - An information portal to biological macromolecular structures

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\spir using the Feature Mapper tool.

External Data

Crossreferences

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

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).

2.84

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

pole plasm

Comment: maternally deposited

(Fisher et al., 2012)

organism

• pole plasm

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 1 -- 4

pole plasm | posterior

(Lecuyer et al., 2007)

embryonic stage 4 -- 6

organism | ubiquitous

(Fisher et al., 2012)

primordial germ cell

(Fisher et al., 2012)

embryonic stage 5

primordial germ cell

(Lecuyer et al., 2007)

embryonic stage 7 -- 8

primordial germ cell

(Fisher et al., 2012)

embryonic stage 9 -- 10

germline cell

(Fisher et al., 2012)

embryonic stage 11 -- 12

clypeo-labral primordium

(Fisher et al., 2012)

foregut primordium

(Fisher et al., 2012)

germline cell

(Fisher et al., 2012)

gnathal primordium

(Fisher et al., 2012)

hindgut proper primordium

(Fisher et al., 2012)

labral sensory complex primordium

(Fisher et al., 2012)

posterior midgut primordium

(Fisher et al., 2012)

rectum primordium

Comment: reported as rectum specific anlage

(Fisher et al., 2012)

ventral epidermis primordium

(Fisher et al., 2012)

ventral imaginal tissue

Comment: reported as ventral imaginal precursor specific anlage

(Fisher et al., 2012)

Additional Descriptive Data

spir expression at embryonic stages 1-4 is localized to the posterior pole of the embryo.

(Lecuyer et al., 2007)

Both spir transcripts are present in nurse cells and follicle cells from germarium region 2 onwards.

(Wellington et al., 1999)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

oogenesis stage S6 -- S10 & adult stage | female

oocyte

(Quinlan et al., 2007)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

day 5 of adulthood & male -- day 7 of adulthood & male

spermatozoon

(Wasbrough et al., 2010)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cell cortex

inferred from direct assay

(Quinlan, 2013, Rosales-Nieves et al., 2006)

located_in cytoplasm

inferred from direct assay

(Rosales-Nieves et al., 2006)

Expression Deduced from Reporters

Reporter: P{ST.lexA::HG}spir^JHW-9

Stage

Tissue/Position (including subcellular localization)

Reference

Reporter: P{ST.lexA::HG}spir^SE120

Stage

Tissue/Position (including subcellular localization)

Reference

wandering third instar larval stage

embryonic/larval central nervous system

(Bloomington Drosophila Stock Center, 2019)

larval ventral nerve cord

(Bloomington Drosophila Stock Center, 2019)

embryonic/larval proventriculus

(Bloomington Drosophila Stock Center, 2019)

gastric caecum

(Bloomington Drosophila Stock Center, 2019)

eye disc

(Bloomington Drosophila Stock Center, 2019)

photoreceptor neuron

(Bloomington Drosophila Stock Center, 2019)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\spir in JBrowse

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

View exonic expression by developmental stage for Dmel\spir

View exonic expression by tissue for Dmel\spir

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

FBgn0003475

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

45931/tissue=All

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

FBgn0003475

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0003475

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

FBgn0003475

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

CG10076

Flygut - An atlas of the Drosophila adult midgut

FBgn0003475

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\spir

Stages(s) 1-3
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 60 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 18 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of spir

Transgenic constructs containing regulatory region of spir

Aberrations (Deficiencies and Duplications) ( 35 )

Inferred from experimentation ( 35 )

Gene not disrupted in

Inferred from location ( 0 )

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

lethal | maternal effect | recessive

lethal | recessive

lethal - all die during embryonic stage | germline clone | non-rescuable maternal effect | recessive

partially lethal - majority die | recessive

spir¹

viable

spir^MI05646

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

spir^GD6626

viable, with Scer\GAL4^Mef2.PR

spir^GD6626

viable, with Scer\GAL4^pnr-MD237

spir^GD6626

viable, with Scer\GAL4^tin.CΔ4

spir^GD6626

viable (with Df(2L)pr9201)

spir^08327b

viable (with Df(2L)pr11163)

spir^08327b

viable (with Df(2L)TW50)

spir^08327b

viable (with Df(2L)TW65)

spir^08327b

Sterility

Allele

female semi-sterile, with spir¹/Df(2L)Exel6046, Scer\GAL4^{VP16.nanos.UTR}

female semi-sterile (with Df(2L)Exel6046), with Scer\GAL4^{VP16.nanos.UTR}, spir^RD.UASp.GFP

spir¹

female semi-sterile (with Df(2L)Exel6046), with Scer\GAL4^{VP16.nanos.UTR}, spir^UASp.RB

spir¹

female sterile

female sterile, with Df(2L)Exel6046, Scer\GAL4^{VP16.nanos.UTR}

spir^{Y232K.UASp.RB.GFP}

female sterile (with Df(2L)Exel6046)

spir¹

grandchildless

spir^Z2-4614

Other Phenotypes

Allele

abnormal neuroanatomy | larval stage (with spir¹)

spir^2F

abnormal neuroanatomy | larval stage (with spir^2F)

spir¹

abnormal oxidative stress response

spir^MB05102

some die during embryonic stage | non-rescuable maternal effect | recessive

Phenotype manifest in

Allele

actin filament, with Df(2L)Exel6046, Scer\GAL4^{VP16.nanos.UTR}

spir^{Y232K.UASp.RB.GFP}

actin filament (with Df(2L)Exel6046)

spir¹

dendrite | larval stage (with spir¹)

spir^2F

dendrite | larval stage (with spir^2F)

spir¹

dendritic branch | decreased number | larval stage (with spir¹)

spir^2F

dendritic branch | decreased number | larval stage (with spir^2F)

spir¹

dorsal appendage | maternal effect

egg (with Df(2L)Exel6046)

spir¹

egg | maternal effect

egg chamber

spir¹

egg chamber | maternal effect

egg chorion | maternal effect

embryo | blastoderm stage | maternal effect

spir¹

embryo | germline clone | maternal effect | posterior

embryo | maternal effect

embryonic abdomen | maternal effect

filamentous actin | oogenesis stage S9

spir¹

follicle cell | maternal effect

karyosome

spir¹

larval multidendritic class III neuron (with spir¹)

spir^2F

larval multidendritic class III neuron (with spir^2F)

spir¹

microtubule | oogenesis stage S8 (with spir²⁴²)

spir^EC

microtubule | oogenesis stage S8 (with spir^EC)

spir²⁴²

oocyte, with Df(2L)Exel6046, Scer\GAL4^{VP16.nanos.UTR}

spir^{Y232K.UASp.RB.GFP}

oocyte (with Df(2L)Exel6046)

spir¹

oocyte | oogenesis stage S8 (with spir²⁴²)

spir^EC

oocyte | oogenesis stage S8 (with spir^EC)

spir²⁴²

oocyte | oogenesis stage S9

spir¹

oocyte nucleus

spir¹

primordial germ cell | maternal effect

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) (3)

Hsap\SPIRE1

13 of 14

Yes

Hsap\SPIRE2

11 of 14

Yes

Hsap\CEP76

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) (2)

Rnor\Spire1

12 of 14

Yes

Rnor\Spire2

11 of 14

Yes

Mus musculus (laboratory mouse) (2)

Mmus\Spire1

13 of 14

Yes

Mmus\Spire2

10 of 14

Yes

Xenopus tropicalis (Western clawed frog) (8)

Xtro\spire1

6 of 13

Yes

Xtro\spire2

6 of 13

Yes

Xtro\dpp4

2 of 13

Xtro\fam83c

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (4)

Drer\spire1a

13 of 14

Yes

Drer\spire2

11 of 14

Yes

Drer\spire1b

9 of 14

Yes

Drer\zgc:114123

5 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (2)

Agam\AgaP_AGAP008100

10 of 12

Yes

Agam\AgaP_AGAP008101

1 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:spir. 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) (0)

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 ( 0 )

Human Ortholog

Disease

Evidence

References

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?

SPIRE1; spire type actin nucleation factor 1

13 of 14

609216

SPIRE2; spire type actin nucleation factor 2

11 of 14

609217

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

spir - Act5C

molecular sieving, molecular weight, x ray scattering, x-ray crystallography

(Sitar et al., 2011, Ducka et al., 2010)

spir - Rho1

anti bait coimmunoprecipitation, western blot, pull down, autoradiography

(Liu et al., 2009, Rosales-Nieves et al., 2006)

spir - capu

pull down, autoradiography

(Rosales-Nieves et al., 2006)

spir - egg

pull down, autoradiography, two hybrid

(Stabell et al., 2006)

spir - mon2

two hybrid, anti tag coimmunoprecipitation, anti tag western blot

(Tanaka et al., 2011)

spir - wash

pull down, autoradiography, anti bait coimmunoprecipitation, western blot

(Liu et al., 2009)

RNA-protein

Physical Interaction

Assay

References

spir - aub

iclip, partial RNA sequence identification

(Barckmann et al., 2015)

Summary of Genetic Interactions

esyN Network Diagram

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

esyN Network Key:

Suppression

Enhancement

Other Interaction Browsers

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

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

spir

suppressible

capu

(Dahlgaard et al., 2007)

spir

suppressible

Cf2

(Hsu et al., 1996)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

ccb

enhanceable

spir

(Martin-Peña and Ferrus, 2020)

mira

suppressible

spir

(Chang et al., 2011)

External Data

Subunit Structure (UniProtKB)

Interacts with bsk, Rho1, Rac1, Cdc42 and wash. Interacts with capu.

(UniProt, Q9U1K1 )

Linkouts

BioGRID - A database of protein and genetic interactions.

69994

DroID - A comprehensive database of gene and protein interactions.

FBgn0003475

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

45931

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Dorso-ventral axis formation

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-54

Cytogenetic map

38C5-38C5

Sequence location

2L:20,311,219..20,348,386 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

38C5-38C5

Limits computationally determined from genome sequence between P{lacW}k09005 and P{EP}CG16798^EP401&P{lacW}k07219

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

38C-38C

(Kerkhoff, 1999.5.20)

Experimentally Determined Recombination Data

Location

2-54

(FlyBase, 2016)

2-54.0

(Comeron et al., 2012)

2-54.5

(Manseau and Schupbach, 1989)

Left of (cM)

Right of (cM)

Notes

Mapped using spir¹.

(Manseau and Schupbach, 1989)

Stocks and Reagents

Stocks (50)

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

Bloomington

24765

w^*; P{UASp-spir.RC.GFP}21

24766

w^*; P{UASp-spir.RC.GFP}32

24767

w^*; P{UASp-spir.GFP.RD}30

38756

w¹¹¹⁸; P{GMR50F11-GAL4}attP2

38762

w¹¹¹⁸; P{GMR50G11-GAL4}attP2

38783

w¹¹¹⁸; P{GMR51E06-GAL4}attP2

38787

w¹¹¹⁸; P{GMR51F01-GAL4}attP2

38799

w¹¹¹⁸; P{GMR51G10-GAL4}attP2

FlyORF

F001541

M{UAS-spir.ORF}ZH-86Fb

F001174

M{UAS-spir.ORF.3xHA}ZH-86Fb

VDRC

v107335

P{KK109380}VIE-260B

v44092

w¹¹¹⁸; P{GD6626}v44092

More stocks available...

Genomic Clones (20)

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

cDNA Clones (84)

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

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.

FBgn0003475

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0003475

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

The spir-RC isoform crosslinks microtubules and microfilaments at the oocyte cortex; the spir-RD isoform can bind the spir-RC isoform and prevent its microfilament crosslinking activity.

(Rosales-Nieves et al., 2006)

dsRNA made from templates generated with primers directed against this gene is tested in an RNAi screen for effects on actin-based lamella formation.

(Rogers et al., 2003)

Area matching Drosophila EST AA390587.

(Davies, 2001.3.15)

The spir protein links rho family signalling to the actin cytoskeleton.

(Wellington et al., 1999)

The chic mutant phenotype resembles that caused by disrupting the actin cytoskeleton with cytochalasin D, and that of capu and spir.

(Manseau et al., 1996)

capu and spir are not required for the synthesis or nuclear localisation of fs(1)K10 protein and they mediate dorsoventral patterning independently of fs(1)K10 mRNA localisation.

(Serano and Cohen, 1995)

Only vas and tud are essential for osk-induced pole cell and abdomen formation, spir is not.

(Ephrussi and Lehmann, 1992)

vas, vls and tud (but not stau, capu, or spir) are necessary for the 6xosk mutant phenotypes.

(Smith et al., 1992)

spir mutant embryos exhibit an absence of posterior pole plasm, polar granules and pole cells. BicD,spir embryos exhibit a duplication of the posterior telson at the anterior: the posterior signal can be active at the anterior independent of spir function. spir is required specifically for the localization, not synthesis, of the posterior signal.

(Lehmann and Nusslein-Volhard, 1991)

Mutations in maternal dorsal class gene spir do not interact with RpII140^wimp.

(Parkhurst and Ish-Horowicz, 1991)

Mutations at the spir locus cause defects in midoogenesis.

(Schupbach and Wieschaus, 1991)

spir gene function affects dorsoventral and anteroposterior patterning.

(Lasko and Ashburner, 1990)

spir plays a role in polar granule formation.

(Raff et al., 1990)

Mutations in grk and Egfr are epistatic to mutations in capu and spir.

(Manseau and Schupbach, 1989)

capu and spir participate in pattern formation in both the dorsoventral and anteroposterior axes of the embryo. Mosaic analysis reveals that the products of both are required in the oocyte-nurse cell complex.

(Manseau and Schupbach, 1989)

Relationship to Other Genes

Source for database merge of

Source for merge of: spir CG10076

(Whitfield, 2000.5.15)

Source for merge of: spir CG18621

(Whitfield, 2000.12.15)

Source for merge of: spir Spir

(FlyBase, 1996-)

Additional comments

Source for merge of spir Spir was sequence comparison ( date:000414 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (12)

Reported As

Symbol Synonym

38C.34

(Butler, 2001, Butler et al., 2001, McGill Drosophila Genome Project, 2001.9.25)

38C.37

(Butler, 2001, Butler et al., 2001, McGill Drosophila Genome Project, 2001.9.25)

CG10076

(National Institute of Genetics Fly Stocks, 2022-, Quinlan, 2013, Schertel et al., 2013, Aerts et al., 2010, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Perkins et al., 2009, Rogers et al., 2003, Whitfield, 2000.5.15, Whitfield, 2000.5.15)

CG18621

NP2788

(Strand and Micchelli, 2011)

Spir

(Fanara et al., 2023, Quinlan, 2016, Silva et al., 2016, Liu and Lasko, 2015, Roth-Johnson et al., 2014, Lee et al., 2011, Tanaka et al., 2011, Dahlgaard et al., 2007)

Spire

(Kilo et al., 2021, Sitar et al., 2011, Haglund et al., 2010, Kerkhoff, 2006)

l(2)08327

(Butler, 2001)

p150-Spir

(Ciccarelli et al., 2003, Jacinto et al., 2002, Paunola et al., 2002, Van Aelst and Symons, 2002, Otto, 2000, Otto et al., 2000, Kerkhoff, 1999.5.20)

p150Spir

(Xia and Karin, 2004)

spir

(Hersperger et al., 2024, Stürner et al., 2022, Pang et al., 2021, Bradley et al., 2020, Chougule et al., 2020, Jiang et al., 2019, Kockel et al., 2019, Whittle and Extavour, 2019, Gene Disruption Project members, 2018-, Kockel et al., 2016, Barckmann et al., 2015, Gene Disruption Project members, 2015-, Jambor et al., 2015, Rodal et al., 2015, Ashwal-Fluss et al., 2014, Ferreira et al., 2014, Potier et al., 2014, Rudrapatna et al., 2014, Quinlan, 2013, Schertel et al., 2013, Webber et al., 2013, Zhu and Zhang, 2013, Chen et al., 2012, Hazelett et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Jordan et al., 2012, Murray et al., 2012, Xu et al., 2012, Guan et al., 2011, Tanaka et al., 2011, Aerts et al., 2010, Wasbrough et al., 2010, Yassin et al., 2010, Liu et al., 2009, Xi et al., 2008, Lecuyer et al., 2007, Neuman-Silberberg, 2007, Girardot et al., 2006, Stabell et al., 2006, Stapleton et al., 2006, Wang et al., 1994)

spire

(Drechsler et al., 2020, Wang and Riechmann, 2008)

Name Synonyms

Secondary FlyBase IDs

FBgn0029122
FBgn0032854
FBgn0040997

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 102 )

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.

45931

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.

Q9U1K1

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

Q9U1K1

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.

Q9U1K1

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0003475

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

45931/tissue=All

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

FBgn0003475

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

FBgn0003475

FlyMine - An integrated database for Drosophila genomics

FBgn0003475

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

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

dme:Dmel_CG10076

MARRVEL_MODEL - MARRVEL (model organism gene)

45931

PDB - An information portal to biological macromolecular structures

Linkouts

BioGRID - A database of protein and genetic interactions.

69994

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

FBgn0003475

DroID - A comprehensive database of gene and protein interactions.

FBgn0003475

DRSC - Results frm RNAi screens

FBgn0003475

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0003475

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0003475

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

CG10076

Flygut - An atlas of the Drosophila adult midgut

FBgn0003475

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

TC014290

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

Interactive Fly

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Dorso-ventral axis formation

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

45931

References (268)

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

2.84

Report Sections