FlyBase Gene Report: Dmel\Tsp42Eo

TETRASPANINS -: Tetraspanins (TSP) have four transmembrane domains and two extracellular loops containing specific short motifs, including highly conserved cysteine residues. TSPs are thought to function as scaffolds that bring multiple proteins - including other TSPs, membrane-associated proteins, extracellular and cytosolic proteins - into single membrane region. These regions are called tetraspanin-enriched microdomains. (Adapted from FBrf0227776 and FBrf0152316).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\Tsp42Eo or the JBrowse view of Dmel\Tsp42Eo 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 5.44

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

Gene model reviewed during 5.48

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Tsp42Eo-RA

FBtr0089035

NM_078917

889

219

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

Tsp42Eo-PA

FBpp0088106

24.5

219

7.16

NP_523641

AAF59300

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

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Tsp42Eo using the Feature Mapper tool.

External Data

Crossreferences

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

Tsp42Eo_1

Linkouts

Gene Ontology (1 term)

Molecular Function (0 terms)

There is no information supporting a Molecular Function term for this gene. (Based on a review of available data on: 2011-06-30 )

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

integral component of membrane

inferred from electronic annotation with InterPro:IPR000301, InterPro:IPR008952, InterPro:IPR018499

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

inferred from sequence model

(Fradkin et al., 2002)

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

Additional Descriptive Data

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\Tsp42Eo 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\Tsp42Eo

View exonic expression by tissue for Dmel\Tsp42Eo

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

FBgn0033136

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG12838-RA

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

CG12838

Flygut - An atlas of the Drosophila adult midgut

FBgn0033136

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 ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Tsp42Eo

Transgenic constructs containing regulatory region of Tsp42Eo

Deletions and Duplications ( 2 )

Disrupted in

Df(2R)Δ42E

(Lin et al., 2005)

Df(2R)Exel6283

(Ryder, 2004.4.26)

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

Tsp42Eo^GD3754

viable, with Scer\GAL4^Mef2.PR

Tsp42Eo^GD3754

viable, with Scer\GAL4^pnr-MD237

Tsp42Eo^GD3754

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (2)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\CD63

2 of 15

Yes

Hsap\TSPAN15

1 of 15

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Cd63

2 of 15

Yes

Rattus norvegicus (Norway rat) (1)

Rnor\Cd63

2 of 13

Yes

Xenopus tropicalis (Western clawed frog) (0)

No records found.

Danio rerio (Zebrafish) (2)

Drer\cd63

2 of 15

Yes

Drer\tspan3a

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\tsp-7

2 of 15

Yes

Cele\tsp-5

1 of 15

Cele\tsp-15

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (4)

Atha\AT2G20230

1 of 9

Yes

Atha\AT2G20740

1 of 9

Yes

Atha\AT4G28770

1 of 9

Yes

Atha\TOM2A

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190FW5 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Dmel\Tsp42Eo

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA11844

Drosophila persimilis

Dper\GL11149

Drosophila willistoni

Dwil\GK21786

Drosophila virilis

Dvir\GJ15140

Drosophila mojavensis

Dmoj\GI19480

Drosophila grimshawi

Dgri\GH10375

Drosophila grimshawi

Dgri\GH21510

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150DWR )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17014906

Glossina morsitans

Tsetse fly

Gmor\GMOY003648

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_02372

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )

No non-Dipteran orthologies identified

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0H0S )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Ixodes scapularis

Black-legged tick

Isca\ISCW009187

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 v7.1)

Drosophila melanogaster (Fruit fly) (33)

Gene Symbol

Score

Source

Alignment

lbm

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Comments on Models/Modifiers Based on Experimental Evidence ( 0 )

Disease Associations of Human Orthologs (via DIOPT v7.1 and OMIM)

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

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

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.

FBgn0033136

Pathways

Gene Group - Pathway Membership (FlyBase)

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-55

Cytogenetic map

42E7-42E7

Sequence location

2R:7,054,717..7,056,576 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

42E7-42E7

Limits computationally determined from genome sequence between P{lacW}vimar^k16722 and P{lacW}cos^k16101

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-55

(FlyBase, 2016)

2-56.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

Bloomington

28424

y¹ w^*; P{EP}Tsp42Eo^G19478

VDRC

v103222

P{KK111463}VIE-260B

v8722

w¹¹¹⁸; P{GD3754}v8722/CyO

Genomic Clones (22)

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

cDNA Clones (13)

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

cDNA clones, fully sequences

BDGP DGC clones

Other clones

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0033136

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0033136

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

35625

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: Tsp42Eo CG12838

(Todres et al., 2000)

Source for database merge of

Source for merge of: Tsp42Eo BcDNA:RH51444

(FlyBase, 1996-)

Additional comments

Source for merge of Tsp42Eo BcDNA:RH51444 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Other Comments

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 27 )

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.

35625

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

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

Other crossreferences

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

FBgn0033136

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

Tsp42Eo_1

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

CG12838

Flygut - An atlas of the Drosophila adult midgut

FBgn0033136

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

35625

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

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

Dmel_CG12838

modMine - A data warehouse for the modENCODE project

FBgn0033136

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0033136

DRSC - Results frm RNAi screens

FBgn0033136

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

FBgn0033136

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG12838-RA

FlyMine - An integrated database for Drosophila genomics

FBgn0033136

Synonyms and Secondary IDs (6)

Reported As

Symbol Synonym

BcDNA:RH51444

CG12838

(Hosono et al., 2015, Keleman et al., 2009.8.5, Fradkin et al., 2002, Todres et al., 2000)

Dm.Tsp42Eo

(Todres et al., 2000)

Tsp42Eo

(Tsai et al., 2019, Zhang et al., 2016, Fox and Andrew, 2015, Jeibmann et al., 2015, Japanese National Institute of Genetics, 2012.5.21, Tokusumi et al., 2012, Napoletano et al., 2011)

Name Synonyms

Tetraspanin 42Eo

(Jeibmann et al., 2015, Todres et al., 2000)

tetraspanin 42E

(Silverman et al., 2003)

Secondary FlyBase IDs

FBgn0062933

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (32)

Report Sections

Open Close