FlyBase Gene Report: Dmel\stck

General Information

Symbol

Dmel\stck

Species

D. melanogaster

Name

steamer duck

Annotation Symbol

CG7954

Feature Type

protein_coding_gene

FlyBase ID

FBgn0020249

Gene Model Status

Current

Stock Availability

20 publicly available

Gene Summary

steamer duck (stck) encodes PINCH, an adapter protein that directly binds and forms a complex with the products of Ilk and ics. PINCH is required for integrin-dependent cell adhesion and signaling. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Interactive Fly

Also Known As

PINCH, pin85A, dpin, d-pinch, stk

Key Links

Genomic Location

Cytogenetic map

84F15-84F15

Sequence location

3R:8,356,978..8,359,964 [+]

Recombination map

3-48

RefSeq locus

NT_033777 REGION:8356978..8359964

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 (12 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (8 terms)

Terms Based on Experimental Evidence (5 terms)

CV Term

Evidence

References

involved_in apposition of dorsal and ventral imaginal disc-derived wing surfaces

inferred from mutant phenotype

(Prout et al., 1997)

involved_in dorsal closure

inferred from mutant phenotype

(Kadrmas et al., 2004)

involved_in embryonic pattern specification

inferred from mutant phenotype

(Kadrmas et al., 2004)

involved_in head involution

inferred from mutant phenotype

(Kadrmas et al., 2004)

involved_in negative regulation of JNK cascade

inferred from genetic interaction with FLYBASE:msn; FB:FBgn0010909

(Kadrmas et al., 2004)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

involved_in cell-cell adhesion

inferred from biological aspect of ancestor with PANTHER:PTN001198022

(GO Reference Genome Project, 2011-)

involved_in cell-cell junction organization

inferred from biological aspect of ancestor with PANTHER:PTN001198022

(GO Reference Genome Project, 2011-)

involved_in positive regulation of integrin-mediated signaling pathway

inferred from biological aspect of ancestor with PANTHER:PTN001198022

(GO Reference Genome Project, 2011-)

Cellular Component (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cell leading edge

inferred from direct assay

(Kadrmas et al., 2004)

located_in focal adhesion

inferred from direct assay

(Delon and Brown, 2009)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

is_active_in cell-cell junction

inferred from biological aspect of ancestor with PANTHER:PTN001198023

(GO Reference Genome Project, 2011-)

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN001198022

(GO Reference Genome Project, 2011-)

is_active_in focal adhesion

inferred from biological aspect of ancestor with PANTHER:PTN001198023

(GO Reference Genome Project, 2011-)

located_in focal adhesion

inferred from electronic annotation with InterPro:IPR047946

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Summary (Interactive Fly)

LIM-only protein (PINCH) that is required for integrin-dependent cell adhesion - physically interacts with Integrin-linked kinase and the adaptor protein Icarus

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\stck 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 Q8INQ9)

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

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

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

Gene model reviewed during 5.49

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

stck-RA

FBtr0081844

NM_079554

1380

335

stck-RB

FBtr0081845

NM_169220

1388

345

stck-RC

FBtr0081846

NM_169221

1335

348

stck-RD

FBtr0306260

NM_001260058

1500

335

Additional Transcript Data and Comments

Reported size (kB)

1.364 (longest cDNA)

(Hobert, 1999)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

stck-PA

FBpp0081334

38.7

335

8.08

FBpp0081335

39.7

345

8.08

FBpp0081336

40.1

348

8.08

FBpp0297370

38.7

335

8.08

Q9XYA7

NP_001246987

AFH06306

Polypeptides with Identical Sequences

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

335 aa isoforms: stck-PA, stck-PD

Additional Polypeptide Data and Comments

Reported size (kDa)

335 (aa)

(Hobert, 1999)

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\stck 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).

0.03

Transcript Expression

No Assay Recorded

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 13

visceral trunk mesoderm

(Hobert, 1999)

embryonic stage 16

muscle attachment site

(Hobert, 1999)

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 10

mesoderm

(Hobert, 1999)

embryonic stage 11 -- 12

trunk visceral muscle primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

larval visceral muscle cell

(Fisher et al., 2012)

embryonic stage 16

visceral trunk mesoderm

(Hobert, 1999)

Additional Descriptive Data

stck transcripts are first detected in stage 10 embryos, with high levels detected in the mesoderm. In later embryonic stages, transcripts are detected in the visceral mesoderm, flanking the gut, and also detected at the muscle attachment sites.

(Hobert, 1999)

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

located_in cell leading edge

inferred from direct assay

(Kadrmas et al., 2004)

located_in focal adhesion

inferred from direct assay

(Delon and Brown, 2009)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\stck in JBrowse

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

View exonic expression by developmental stage for Dmel\stck

View exonic expression by tissue for Dmel\stck

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

FBgn0020249

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

40999/tissue=All

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

FBgn0020249

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020249

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

FBgn0020249

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

CG7954

Flygut - An atlas of the Drosophila adult midgut

FBgn0020249

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\stck

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 ( 8 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 20 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of stck

Transgenic constructs containing regulatory region of stck

Aberrations (Deficiencies and Duplications) ( 6 )

Inferred from experimentation ( 6 )

Gene disrupted in

Df(3R)097

(Clark et al., 2003)

Df(3R)BSC198

(Gresens and Cook, 2006.8.29)

Df(3R)BSC248

(Christensen et al., 2007.3.22)

Df(3R)ED5230

(Ryder and Roote, 2004.11.10)

Df(3R)Exel6148

(Ryder, 2004.4.26)

Df(3R)p712

(Prout et al., 1997)

Inferred from location ( 6 )

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 | embryonic stage (with stck^3R-17)

stck¹⁸

lethal | embryonic stage (with stck¹⁸)

stck^3R-17

lethal | embryonic stage | recessive

stck^unspecified

lethal | larval stage (with stck^3R-17)

stck¹⁸

lethal | larval stage (with stck¹⁸)

stck^3R-17

lethal | larval stage | recessive

stck^unspecified

lethal - all die before end of larval stage | recessive

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

stck^GD12329

viable, with Scer\GAL4^tin.CΔ4

stck^GD12329

viable, with stck¹⁸/stck^3R-17

stck^{D303V.Tag:FLAG}

viable (with stck^3R-17), with stck^{D303V.Tag:FLAG}

stck¹⁸

viable (with stck¹⁸), with stck^{D303V.Tag:FLAG}

stck^3R-17

Other Phenotypes

Allele

abnormal cell shape | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

abnormal cell shape | third instar larval stage, with Scer\GAL4^pnr-MD237

abnormal locomotor behavior | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

abnormal wound healing | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

decreased rate of movement | larval stage | recessive

stck^unspecified

increased cell size | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

increased cell size | third instar larval stage, with Scer\GAL4^pnr-MD237

some die during larval stage | recessive

visible, with stck¹⁸/stck^3R-17

stck^{D303V.Tag:FLAG}

visible (with stck^3R-17), with stck^{D303V.Tag:FLAG}

stck¹⁸

visible (with stck¹⁸), with stck^{D303V.Tag:FLAG}

stck^3R-17

visible | recessive | somatic clone

stck^3R-17

visible | somatic clone

Phenotype manifest in

Allele

embryonic/first instar larval cuticle | dorsal | germline clone

embryonic/larval epidermis | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

embryonic/larval epidermis | third instar larval stage, with Scer\GAL4^pnr-MD237

embryonic/larval hypodermal muscle cell | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

embryonic/larval hypodermal muscle cell | third instar larval stage, with Scer\GAL4^pnr-MD237

embryonic head | germline clone

stck^3R-17

embryonic somatic muscle cell (with Df(3R)097)

larva

larval somatic muscle cell

myofibril & actin filament (with Df(3R)097)

tendon cell | third instar larval stage, with Scer\GAL4^e22c

stck^NIG.7954R

tendon cell | third instar larval stage, with Scer\GAL4^pnr-MD237

stck^NIG.7954R

wing, with stck¹⁸/stck^3R-17

stck^{D303V.Tag:FLAG}

wing (with stck^3R-17), with stck^{D303V.Tag:FLAG}

stck¹⁸

wing (with stck¹⁸), with stck^{D303V.Tag:FLAG}

stck^3R-17

wing | somatic clone

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) (61)

Hsap\LIMS1

13 of 14

Yes

Hsap\LIMS2

13 of 14

Yes

Hsap\FHL2

5 of 14

Yes

Hsap\FHL3

5 of 14

Yes

Hsap\FHL5

5 of 14

Yes

Hsap\LIMS3

5 of 14

Yes

Hsap\LIMS4

5 of 14

Yes

Hsap\FHL1

4 of 14

Yes

4 of 14

4 of 14

4 of 14

3 of 14

Yes

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

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

Hsap\LIMS3-LOC440895

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

Yes

Hsap\ZNF185

1 of 14

Yes

Hsap\ZNF567

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) (38)

Rnor\Lims1

14 of 14

Yes

Rnor\Lims2

13 of 14

Yes

Rnor\Fhl2

5 of 14

Rnor\Fhl3

5 of 14

Rnor\Fhl5

5 of 14

Yes

4 of 14

4 of 14

4 of 14

4 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

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

Yes

Rnor\Zyx

1 of 14

Mus musculus (laboratory mouse) (41)

Mmus\Lims1

14 of 14

Yes

Mmus\Lims2

13 of 14

Yes

Mmus\Fhl2

5 of 14

Yes

Mmus\Fhl3

5 of 14

Yes

Mmus\Fhl5

5 of 14

Yes

Mmus\Fhl1

4 of 14

Yes

Mmus\Fhl4

4 of 14

Yes

4 of 14

4 of 14

4 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

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

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mmus\Zfp185

1 of 14

Yes

Mmus\Zyx

1 of 14

Xenopus tropicalis (Western clawed frog) (43)

Xtro\lims1

8 of 13

Yes

Xtro\fhl2

4 of 13

Yes

Xtro\fhl3

4 of 13

Yes

Xtro\fhl5

4 of 13

Yes

Xtro\pxn

4 of 13

Xtro\pdlim5

3 of 13

Xtro\tgfb1i1

3 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 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

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (40)

Drer\lims1

14 of 14

Yes

Drer\lims2

13 of 14

Yes

Drer\fhl1b

5 of 14

Yes

5 of 14

5 of 14

5 of 14

4 of 14

4 of 14

4 of 14

4 of 14

4 of 14

4 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

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

Yes

Drer\lmo7b

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (22)

Cele\unc-97

14 of 14

Yes

Cele\pin-2

5 of 14

Yes

4 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

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

Anopheles gambiae (African malaria mosquito) (24)

Agam\AgaP_AGAP003429

11 of 12

Yes

Agam\AgaP_AGAP012744

7 of 12

Yes

Agam\AgaP_AGAP000755

4 of 12

Agam\AgaP_AGAP008532

4 of 12

Agam\AgaP_AGAP005398

3 of 12

Yes

3 of 12

3 of 12

3 of 12

2 of 12

2 of 12

2 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) (15)

Atha\DA1

2 of 13

Yes

Atha\AT2G28460

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

Saccharomyces cerevisiae (Brewer's yeast) (4)

Scer\LRG1

3 of 13

Yes

Scer\PXL1

2 of 13

Scer\RGA1

1 of 13

Scer\RGA2

1 of 13

Schizosaccharomyces pombe (Fission yeast) (4)

Spom\pxl1

4 of 12

Yes

Spom\rga1

3 of 12

Spom\rga3

1 of 12

Spom\rga4

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:stck. 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) (26)

7 of 13

6 of 13

6 of 13

6 of 13

Pax

6 of 13

4 of 13

Zasp52

4 of 13

esn

3 of 13

Tes

3 of 13

jub

2 of 13

Zyx

2 of 13

1 of 13

Awh

1 of 13

CG4328

1 of 13

Lim1

1 of 13

Lim3

1 of 13

lms

1 of 13

Lmx1a

1 of 13

Mlp84B

1 of 13

prd

1 of 13

smash

1 of 13

tup

1 of 13

Unc-115a

1 of 13

Unc-115b

1 of 13

Zasp67

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 ( 6 )

Human Ortholog

Disease

Evidence

References

LIMS2; LIM zinc finger domain containing 2

model of autosomal recessive limb-girdle muscular dystrophy type 2W

IEA

(FlyBase, 2019-)

FHL1; four and a half LIM domains 1

model of reducing body myopathy 1B

IEA

(FlyBase, 2019-)

model of reducing body myopathy 1A

IEA

(FlyBase, 2019-)

model of scapuloperoneal myopathy

IEA

(FlyBase, 2019-)

model of Uruguay faciocardiomusculoskeletal syndrome

IEA

(FlyBase, 2019-)

model of X-linked Emery-Dreifuss muscular dystrophy 6

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?

LIMS1; LIM zinc finger domain containing 1

13 of 14

602567

LIMS2; LIM zinc finger domain containing 2

13 of 14

607908

MUSCULAR DYSTROPHY, AUTOSOMAL RECESSIVE, WITH CARDIOMYOPATHY AND TRIANGULAR TONGUE; MDRCMTT

autosomal recessive limb-girdle muscular dystrophy type 2W

FHL2; four and a half LIM domains 2

5 of 14

602633

FHL3; four and a half LIM domains 3

5 of 14

602790

FHL5; four and a half LIM domains 5

5 of 14

605126

LIMS3; LIM zinc finger domain containing 3

5 of 14

LIMS4; LIM zinc finger domain containing 4

5 of 14

FHL1; four and a half LIM domains 1

4 of 14

FOUR-AND-A-HALF LIM DOMAINS 1; FHL1

4 of 14

4 of 14

TGFB1I1; transforming growth factor beta 1 induced transcript 1

4 of 14

602353

FBLIM1; filamin binding LIM protein 1

3 of 14

607747

LMCD1; LIM and cysteine rich domains 1

3 of 14

604859

PDLIM5; PDZ and LIM domain 5

3 of 14

605904

PDLIM7; PDZ and LIM domain 7

3 of 14

605903

PRICKLE1; prickle planar cell polarity protein 1

3 of 14

608500

EPILEPSY, PROGRESSIVE MYOCLONIC, 1B; EPM1B

progressive myoclonus epilepsy 1B

PRICKLE2; prickle planar cell polarity protein 2

3 of 14

608501

PRICKLE3; prickle planar cell polarity protein 3

3 of 14

PRICKLE PLANAR CELL POLARITY PROTEIN 3; PRICKLE3

LEBER HEREDITARY OPTIC NEUROPATHY, MODIFIER OF; LOAM

TES; testin LIM domain protein

3 of 14

606085

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

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

stck - CG10209

two hybrid

(Hu et al., 2017.6.13)

stck - Gtpbp2

two hybrid

(Hu et al., 2017.6.13)

stck - Ilk

anti tag coimmunoprecipitation, western blot, two hybrid, peptide massfingerprinting, pull down, anti bait coimmunoprecipitation, anti tag western blot

(Pronovost et al., 2013, Yoshigi et al., 2013, Elias et al., 2012, Kadrmas et al., 2004, Clark et al., 2003)

stck - ics

two hybrid, anti tag coimmunoprecipitation, western blot, peptide massfingerprinting, pull down

(Pronovost et al., 2013, Yoshigi et al., 2013, Elias et al., 2012, Kadrmas et al., 2004)

stck - parvin

anti tag coimmunoprecipitation, peptide massfingerprinting

(Yoshigi et al., 2013, Kadrmas et al., 2004)

Summary of Genetic Interactions

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

flw

suppressible

stck

(Pronovost et al., 2013)

flw

enhanceable

stck

(Pronovost et al., 2013)

ics

suppressible

stck

(Ojelade et al., 2015)

Mhc

suppressible

stck

(Pronovost et al., 2013)

msn

suppressible

stck

(Kadrmas et al., 2004)

mys

enhanceable

stck

(Prout et al., 1997)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

66180

DroID - A comprehensive database of gene and protein interactions.

FBgn0020249

MIST (genetic) - An integrated Molecular Interaction Database

40999

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

40999

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

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

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

Q8INR0

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-48

Cytogenetic map

84F15-84F15

Sequence location

3R:8,356,978..8,359,964 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

84F15-84F15

Limits computationally determined from genome sequence between P{EP}EP833 and P{lacW}l(3)L4740^L4740

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

85A1-85A3

(determined by in situ hybridisation)

(Clark et al., 2003, Clark, 1999.3.3)

Experimentally Determined Recombination Data

Location

3-48

(FlyBase, 2016)

3-44.9

(Comeron et al., 2012)

(Prout et al., 1997)

Left of (cM)

Right of (cM)

Notes

Located on 3R.

(Prout et al., 1997)

Stocks and Reagents

Stocks (20)

Genomic Clones (14)

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

cDNA Clones (31)

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

FI04589

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.

FBgn0020249

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0020249

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Identification: Genetic screen for autosomal mutations that produce blisters in somatic wing clones.

(Prout et al., 1997)

Mutations affect myo-epidermal junctions or muscle function in embryos.

(Prout et al., 1997)

Identification: Genetic screen for autosomal mutations that produce blisters in somatic wing clones. 2 alleles of stck have been isolated.

(Prout et al., 1997)

Relationship to Other Genes

Source for database merge of

Source for merge of: stck pin85A

(Clark and Beckerle, 2000)

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: pin85A CG7954

(Zhao, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (15)

Reported As

Symbol Synonym

CG7954

(Schertel et al., 2013, Yoshigi et al., 2013, Keleman et al., 2009.8.5, Ni et al., 2008, Gandhi et al., 2007)

D-PINCH

(Clark, 1998.7.17)

Pinch

(Loer et al., 2008, Nguyen et al., 2007)

Stck

(Hossain et al., 2023, She et al., 2021)

dPINCH

(Ranall and Beckerle, 2005)

dpin

(Clark and Beckerle, 1999)

pin85A

(Clark and Beckerle, 2000, Clark, 1999.3.3)

pinch

(Park et al., 2018, Bharadwaj et al., 2013, Clark et al., 2003)

stk

(Prout, 1997.3.19, Prout et al., 1997)

Name Synonyms

PINCH

(Wang and Galko, 2008, Tanentzapf and Brown, 2006, Tanentzapf et al., 2006, Kadrmas et al., 2004, Kadrmas et al., 2004, Torgler et al., 2004)

Pinch

(Camp et al., 2018)

Steamer duck

(Toret et al., 2014)

d-pinch

(Hobert, 1999)

pinch

(Schotman et al., 2009)

steamer duck

(Yoshigi et al., 2013, Hazelett et al., 2012, Carmon et al., 2010, Dibya et al., 2009, Schotman et al., 2009, Loer et al., 2008, Wang and Galko, 2008, MacIntyre et al., 2007, Levi et al., 2006, Lo, 2006, Kadrmas et al., 2004, Prout et al., 1997)

steamerduck

(Ranall and Beckerle, 2005)

Secondary FlyBase IDs

FBgn0026191

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 64 )

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.

40999

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.

Q8INQ9

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.

Q8INQ9

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0020249

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

40999/tissue=All

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

FBgn0020249

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

FBgn0020249

FlyMine - An integrated database for Drosophila genomics

FBgn0020249

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

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

dme:Dmel_CG7954

MARRVEL_MODEL - MARRVEL (model organism gene)

40999

Linkouts

BioGRID - A database of protein and genetic interactions.

66180

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

FBgn0020249

DroID - A comprehensive database of gene and protein interactions.

FBgn0020249

DRSC - Results frm RNAi screens

FBgn0020249

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0020249

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0020249

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

CG7954

Flygut - An atlas of the Drosophila adult midgut

FBgn0020249

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

FBgn0020249

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

TC011050

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

Interactive Fly

MIST (genetic) - An integrated Molecular Interaction Database

40999

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

40999

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

SignaLink - A signaling pathway resource with multi-layered regulatory networks.

Q8INR0

References (117)

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

0.03

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