FlyBase Gene Report: Dmel\sowi

General Information

Symbol

Dmel\sowi

Species

D. melanogaster

Name

solwind

Annotation Symbol

CG15178

Feature Type

protein_coding_gene

FlyBase ID

FBgn0037460

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

84A1-84A1

Sequence location

3R:6,626,930..6,627,900 [-]

Recombination map

3-48

RefSeq locus

NT_033777 REGION:6626930..6627900

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (1 term)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables calcium ion binding

inferred from electronic annotation with InterPro:IPR002048, InterPro:IPR028846

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\sowi 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

Gene model reviewed during 5.48

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

Gene model reviewed during 5.55

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

sowi-RA

FBtr0081701

NM_141414

830

217

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

sowi-PA

FBpp0081199

25.2

217

4.46

NP_649671

AAF54106

Polypeptides with Identical Sequences

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

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q4V5H8

Mapped Features

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

External Data

Crossreferences

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

sowi_1

Linkouts

Expression Data

Expression Summary Ribbons

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

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

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

spermatogenesis

elongation stage spermatid | distal

(Barreau et al., 2008)

primary spermatocyte

Comment: weak

(Barreau et al., 2008)

Additional Descriptive Data

sowi transcripts are detected at low levels in primary spermatocytes and are barely detected in early elongation spermatids. Robust signals are detected in more elongated spermatids at the distal ends. Transcripts localize into a ball shape at the ends of spermatids bundles, trailing away proximally to a less abundant, speckled distribution (called a comet pattern).

(Barreau et al., 2008)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\sowi 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\sowi

View exonic expression by tissue for Dmel\sowi

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

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

FBgn0037460

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG15178-RA

Flygut - An atlas of the Drosophila adult midgut

FBgn0037460

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of sowi

Transgenic constructs containing regulatory region of sowi

Deletions and Duplications ( 0 )

Phenotypes

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

Lethality

Allele

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

sowi^GD8939

viable, with Scer\GAL4^Mef2.PR

sowi^GD8939

viable, with Scer\GAL4^pnr-MD237

sowi^GD8939

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (8)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\EFCAB1

5 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (10)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Efcab1

4 of 15

Yes

3 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Rattus norvegicus (Norway rat) (9)

Rnor\LOC500007

4 of 13

Yes

3 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Xenopus tropicalis (Western clawed frog) (4)

Xtro\efcab1

5 of 12

Yes

Xtro\chp1

1 of 12

Xtro\cib1

1 of 12

Xtro\ppp3r1

1 of 12

Danio rerio (Zebrafish) (8)

Drer\efcab1

3 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

1 of 15

Caenorhabditis elegans (Nematode, roundworm) (4)

Cele\chpf-1

1 of 15

Yes

Cele\chpf-2

1 of 15

Yes

Cele\cnb-1

1 of 15

Yes

Cele\pbo-1

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (5)

Atha\CBL2

1 of 9

Yes

Atha\CBL3

1 of 9

Yes

Atha\CBL6

1 of 9

Yes

Atha\CBL8

1 of 9

Yes

Atha\CBL10

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\CNB1

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190EOP )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila simulans

Drosophila sechellia

Drosophila sechellia

Drosophila erecta

Drosophila erecta

Drosophila yakuba

Drosophila yakuba

Drosophila ananassae

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA13550

Drosophila persimilis

Dper\GL22057

Drosophila willistoni

Dwil\GK11523

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150A31 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17020169

Glossina morsitans

Tsetse fly

Gmor\GMOY008120

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_07198

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL002275

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ019636

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0BC9 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Rhodnius prolixus

Kissing bug

Rpro\RPRC013691

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI43144

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI48193

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )

No non-Arthropod Metazoa orthologies identified

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (16)

Gene Symbol

Score

Source

Alignment

5 of 10

4 of 10

4 of 10

4 of 10

4 of 10

2 of 10

2 of 10

2 of 10

2 of 10

Nca

2 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

elm

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 ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

EFCAB1; EF-hand calcium binding domain 1

5 of 15

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

esyN Network Diagram

Interactions Browser

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0037460

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

sowi

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-48

Cytogenetic map

84A1-84A1

Sequence location

3R:6,626,930..6,627,900 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

84A1-84A1

Limits computationally determined from genome sequence between P{lacW}cas^j1C2 and P{PZ}lab⁰¹²⁴¹

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-48

(FlyBase, 2016)

3-44.2

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

Bloomington

63592

y¹ v¹; P{TRiP.HMJ30159}attP40

81824

y¹ v¹; P{TKO.GS04875}attP40/CyO

41387

y¹ w^*; Mi{MIC}sowi^MI03342/TM3, Sb¹ Ser¹

VDRC

v39968

w¹¹¹⁸; P{GD8939}v39968

Genomic Clones (19)

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

cDNA Clones (4)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

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.

FBgn0037460

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0037460

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

40809

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: sowi CG15178

(Barreau et al., 2008)

Source for database merge of

Additional comments

Other Comments

Origin and Etymology

Discoverer

Etymology

The gene is named "solwind", based on the "comet"-like pattern of expression of the transcript in spermatid bundles; the mRNA localises into a ball shape at the end of the spermatid bundle, trailing away proximally to a less abundant, speckled distribution.

(Barreau et al., 2008)

Identification

External Crossreferences and Linkouts ( 22 )

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.

40809

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.