FlyBase Gene Report: Dmel\stac

General Information

Symbol

Dmel\stac

Species

D. melanogaster

Name

staccato

Annotation Symbol

CG34349

Feature Type

protein_coding_gene

FlyBase ID

FBgn0266719

Gene Model Status

Current

Stock Availability

7 publicly available

Gene Summary

Essential for tracheal development in embryos. Functions with the GTPase Rab39 and downstream of dnd, to regulate lumen fusion between previously separate tracheal branches (anastomosis). Essential component of secretory lysosome-related organelles (SLs) that are present in the tracheal fusion tip cells (FCs). Mediates intracellular fusion of the extending tracheal stalk cell lumen in the FCs by recruiting the SNARE complex component Syx1A to the SLs, this may then enable the SLs to interact with complementary SNAREs (such as Syb) present in the apical membrane of the FC-FC interface and the membranes of the separate tracheal stalk cells. May also function in the maturation and exocytosis of the SLs. (UniProt, Q9VBY8)

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
UniProtKB
Interactive Fly

Also Known As

Unc-13-4B, BP1013

Key Links

Genomic Location

Cytogenetic map

96B19-96B19

Sequence location

3R:25,056,286..25,064,348 [+]

Recombination map

3-86

RefSeq locus

NT_033777 REGION:25056286..25064348

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 (5 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in branch fusion, open tracheal system

inferred from mutant phenotype

(Caviglia et al., 2016)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in neurotransmitter secretion

non-traceable author statement

(Lloyd et al., 2000)

involved_in synaptic vesicle priming

non-traceable author statement

(Lloyd et al., 2000)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in secretory vesicle

inferred from direct assay

(Caviglia et al., 2016)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in secretory vesicle

inferred from biological aspect of ancestor with PANTHER:PTN005270539

(GO Reference Genome Project, 2011-)

located_in synaptic vesicle

non-traceable author statement

(Lloyd et al., 2000)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the unc-13 family. (Q9VBY8)

Protein Signatures (InterPro)

Summaries

Protein Function (UniProtKB)

(UniProt, Q9VBY8)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\stac 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 Q9VBY8)

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

Model Confidence:

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

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

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.47

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

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

stac-RC

FBtr0303025

NM_143072

3622

1153

stac-RD

FBtr0303026

NM_001104439

3655

1128

stac-RE

FBtr0334505

NM_001276018

3671

1143

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

UniProt

RefSeq ID

GenBank

stac-PC

FBpp0292144

131.9

1153

4.61

FBpp0292145

129.3

1128

5.70

FBpp0306572

130.8

1143

4.68

A0A0B4KHI5

NP_001262947

AGB96327

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Interacts with Cam.

(UniProt, Q9VBY8)

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q9VBY8

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\stac 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).

-0.95

Transcript Expression

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

located_in secretory vesicle

inferred from direct assay

(Caviglia et al., 2016)

Expression Deduced from Reporters

Reporter: PBac{stac-GFP.TTGF} P{stac-GFP.TTGF}

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 16 -- 17

embryonic/larval tracheal section

(Caviglia et al., 2016)

embryonic/larval epidermis

(Caviglia et al., 2016)

embryonic/larval Malpighian tubule

(Caviglia et al., 2016)

embryonic/larval hemocyte

(Caviglia et al., 2016)

embryonic/larval hindgut

Comment: boundary cells

(Caviglia et al., 2016)

embryonic/larval dorsal vessel

Comment: boundary cells

(Caviglia et al., 2016)

larval muscle system

Comment: boundary cells

(Caviglia et al., 2016)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\stac in JBrowse

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

View exonic expression by developmental stage for Dmel\stac

View exonic expression by tissue for Dmel\stac

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

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

43002/tissue=All

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

FBgn0266719

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0085378

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

FBgn0266719

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

CG11819

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 11 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 10 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of stac

Transgenic constructs containing regulatory region of stac

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

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

partially lethal - majority live, with Scer\GAL4^phtm.PO

stac^GD7394

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

stac^GD7394

viable, with Scer\GAL4^Mef2.PR

stac^GD7394

viable, with Scer\GAL4^pnr-MD237

stac^GD7394

viable, with Scer\GAL4^tin.CΔ4

stac^GD7394

Other Phenotypes

Allele

abnormal developmental rate | larval stage, with Scer\GAL4^phtm.PO

stac^GD7394

increased body size | third instar larval stage, with Scer\GAL4^phtm.PO

stac^GD7394

some die during larval stage, with Scer\GAL4^phtm.PO

stac^GD7394

Phenotype manifest in

Allele

embryonic/larval dorsal tracheal branch | embryonic stage (with Df(3R)BSC493)

stac^3B20

extracellular vesicle | decreased number | embryonic stage

stac^3B20

larval tracheal system | embryonic stage

stac^3B20

tracheal branch primordium

stac^3B20

tracheal dorsal trunk primordium | embryonic stage

tracheal dorsal trunk primordium | embryonic stage | somatic clone

stac^3B20

tracheal lumen | embryonic stage

stac^3B20

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) (22)

Hsap\BAIAP3

5 of 14

Yes

4 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (5)

Rnor\Baiap3

5 of 14

Yes

4 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (5)

Mmus\Baiap3

5 of 14

Yes

3 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (18)

Xtro\baiap3

3 of 13

Yes

Xtro\unc13d

3 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

Yes

Xtro\unc13c

1 of 13

Danio rerio (Zebrafish) (4)

Drer\baiap3

5 of 14

Yes

Drer\unc13d

3 of 14

Drer\LOC100535393

1 of 14

Drer\unc13a

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (10)

Cele\F54G2.1

3 of 14

Yes

Cele\aex-1

2 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (10)

Agam\AgaP_AGAP003164

11 of 12

Yes

Agam\AgaP_AGAP003162

4 of 12

Yes

2 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) (4)

Atha\AT1G07310

1 of 13

Yes

Atha\AT2G21010

1 of 13

Yes

Atha\NTMC2T2.1

1 of 13

Yes

Atha\SYTC

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\YOR296W

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:stac. 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) (9)

5 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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?

BAIAP3; BAI1 associated protein 3

5 of 14

604009

UNC13D; unc-13 homolog D

4 of 14

608897

HEMOPHAGOCYTIC LYMPHOHISTIOCYTOSIS, FAMILIAL, 3; FHL3

familial hemophagocytic lymphohistiocytosis 3

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

stac - Rab9

pull down, peptide massfingerprinting

(Gillingham et al., 2014)

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

dnd

suppressible

stac

(Caviglia et al., 2016)

dnd

enhanceable

stac

(Caviglia et al., 2016)

Gαq

suppressible

stac

(Yamanaka et al., 2015)

External Data

Subunit Structure (UniProtKB)

Interacts with Cam.

(UniProt, Q9VBY8 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0266719

MIST (genetic) - An integrated Molecular Interaction Database

43002

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

43002

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-86

Cytogenetic map

96B19-96B19

Sequence location

3R:25,056,286..25,064,348 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

96B19-96B19

Limits computationally determined from genome sequence between P{PZ}ssh⁰¹²⁰⁷ and P{lacW}OstStt3^j2D9

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Determined by comparing Celera genomic sequence with sequence from BDGP BAC and P1 clones.

(Lloyd et al., 2000)

96B-96B

(Lloyd et al., 2000)

Experimentally Determined Recombination Data

Location

3-86

(FlyBase, 2016)

3-85.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (7)

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

Bloomington

35999

y¹ w^*; Mi{MIC}stac^MI02542

60186

y¹ w^*; Mi{PT-GFSTF.0}stac^{MI02542-GFSTF.0}

59533

y¹ w^*; Mi{MIC}stac^MI14546/TM3, Sb¹ Ser¹

Kyoto

200679

w^*; P{GSV2}stac^GS5065/TM3, Sb¹ Ser¹

11819R-2

v107730

v107855

Genomic Clones (21)

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

cDNA Clones (11)

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

LD23721

Other clones

IP21372

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.

FBgn0266719

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

LP04238

Other clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

stac is required in tracheal fusion cells for tracheal lumen fusion.

(Caviglia et al., 2016)

New annotation (CG34037) in release 4.3 of the genome annotation.

(FlyBase Genome Annotators, 2005)

Relationship to Other Genes

Source for database merge of

Source for merge of: CG11819 CG34037

(FlyBase Genome Annotators, 2007)

Source for merge of: CG34349 unc-13-4B

(FlyBase, 1992-)

Additional comments

Annotations CG11819 and CG34037 merged as CG34349 in release 5.2 of the genome annotation.

(FlyBase Genome Annotators, 2007)

BLAST analysis, cytological location comparison, and presence of a Munc13 homology 1 InterPro domain confirms that 'unc-13-4B' mentioned solely in FBrf0127207 is identical to CG34349.

(FlyBase, 1992-)

Nomenclature History

Source for database identify of

Source for identity of: CG34037 BP1013

(FlyBase Genome Annotators, 2005)

Source for identity of: stac Unc-13-4B

(Caviglia et al., 2016)

Nomenclature comments

Etymology

The gene is named 'staccato', Italian for 'detached', after the mutant phenotype: embryos show interruptions in the tracheal lumen at anastomosis sites.

(Caviglia et al., 2016)

Named "Unc-13-4B" after the C. elegans ortholog.

(FlyBase, 2009-)

Synonyms and Secondary IDs (12)

Reported As

Symbol Synonym

BP1013

(Yandell et al., 2005)

CG11819

(Nakayama et al., 2014, Christis and Munro, 2012, Adolfsen and Littleton, 2001)

CG34037

(Tamura et al., 2010)

CG34349

(Caviglia et al., 2016, Rosa-Ferreira et al., 2015, Yamanaka et al., 2015, Japanese National Institute of Genetics, 2012.5.21, Kong et al., 2010, Keleman et al., 2009.8.5, FlyBase Genome Annotators, 2007)

Stac

(Camelo and Luschnig, 2021)

Unc-13-4B

(Gene Disruption Project members, 2015-)

dunc-13-4B

(Lloyd et al., 2000)

stac

(Jiang, 2024, Tsarouhas et al., 2023, Camelo et al., 2022, Aboukilila et al., 2020, Caviglia et al., 2016)

unc-13-4B

Name Synonyms

Unc-13 ortholog 4B

Uncoordinated-13 4B

staccato

(Caviglia et al., 2016)

Secondary FlyBase IDs

FBgn0085378
FBgn0082893
FBgn0039268
FBgn0054037
FBgn0042629

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 40 )

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.

43002

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.

Q9VBY8

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

Q9VBY8

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.

Q9VBY8

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

43002/tissue=All

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

FBgn0266719

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

FBgn0266719

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

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

dme:Dmel_CG34349

MARRVEL_MODEL - MARRVEL (model organism gene)

43002

Linkouts

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

FBgn0266719

DroID - A comprehensive database of gene and protein interactions.

FBgn0266719

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0085378

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0266719

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

CG11819

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

FBgn0266719

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

TC011255

MIST (genetic) - An integrated Molecular Interaction Database

43002

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

43002

References (45)

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

-0.95

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