A Database of Drosophila Genes & Genomes

FB2012_01, released January 20th, 2012
 

Gene Dmel\Tsp3A

General Information
SymbolDmel\Tsp3ASpeciesD. melanogaster
NameTetraspanin 3AAnnotation symbolCG10742
Feature typeprotein_coding_geneFlyBase IDFBgn0040334
Gene Model StatusCurrent Stock availability 4 publicly available
Also Known AsEG:BACR7C10.6
Genomic Location
Chromosome (arm)XRecombination map
Cytogenetic map3A7-3A7Sequence locationX:2,511,791..2,513,771 [-]

Genomic Maps

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modENCODE GBrowse
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Automatically generated summary

See sections below for more information
The gene Tetraspanin 3A is referred to in FlyBase by the symbol Dmel\Tsp3A (CG10742, FBgn0040334). It is a protein_coding_gene from Drosophila melanogaster. Its molecular function is unknown. There is experimental evidence that it is involved in the biological process: phagocytosis, engulfment. 3 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Tetraspanin; Tetraspanin, EC2 domain; Tetraspanin, subgroup. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-18 hour embryonic stages, during early pupal stages. Summary of FlyAtlas Anatomical Expression Data: Little or no expression detected in any larval or adult organs/tissues. Comments on Affy2 ProbeSet: ProbeSet 1628184_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Tsp3A. Gene sequence location is X:2511791..2513771.

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Description
What does this section display?
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FB2011_10
Clones
MIP05777
References
FlyBase Curators, 2010-, Gene Ontology (GO) annotation review.
FB2012_01
References
Kemppainen et al., 2009, Mitochondrion 9(5): 353--363
Sequence features
HFA18656
BKN22131
All updates Click here to see a list of all updates to this record from FB2010_08 and on.
hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
3A7-3A7  
Limits computationally determined from genome sequence between P{EP}eghEP804 and P{EP}sggEP1576  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
3A-3A  
 
(Todres, 2000.6.1)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
hide Gene Model & Products
Please see the GBrowse view of Dmel\Tsp3A for information on other features
To submit a correction to a gene model please use the Contact FlyBase form
detailed view FBtr0307159 FBtr0070445 FBtr0070442 FBpp0070429 FBpp0297988 FBpp0070426 FBti0041696
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Tsp3A-RA
FBtr0070445
 NM_080315
  1280
  304
Tsp3A-RB
FBtr0307159
 
  1798
  304
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
Tsp3A-PA  
FBpp0070429  
34.2  
304  
6.14  
  NP_525054
  AAF45797
Tsp3A-PB  
FBpp0297988  
34.2  
304  
6.14  
 
 
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Tetraspanin (IPR018499)
Tetraspanin, subgroup (IPR000301)
Tetraspanin, EC2 domain (IPR008952)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AE014298
AAF45797
 
AF274013
AAF90139
 
AI238968
 
AI238979
 
AL121804
CAB65855
 
BP555620
 
BP555621
 
BT060443
 
CO156096
 
CO156180
 
CO340854
 
CZ481057
 
EC203027
 
EC253406
 
EC261188
 
EC264830
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
hide Mapped Features
Mapped Features have been reorganized, please see this article for details.
Additional mapped features and mutations can be found on GBrowse or related reports.
Type
Symbol & Location
Additional Notes
References
hide External Data
Linkouts
Crossreferences
hide Expression Data
hideTranscript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
hidePolypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
hide High-Throughput Expression Data
or
Untitled Document detailed view Tsp3A-RB Tsp3A-RA Seipin-RA
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
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modENCODE Temporal Expression Data (Graveley et al., 2011)
FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
hide Expression Clusters
A cluster of genes with similar mRNA expression dynamics across development.
(The modENCODE Consortium, 2010)
hide External Data & Images
Linkouts
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
•
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
•
hide Alleles & Phenotypes
hide Summary of Allele Phenotypes
Lethality
Allele
viable
viable, with Scer\GAL4pnr-MD237
Sterility
Allele
fertile
Phenotype manifest in
Allele
hide Classical Alleles ( 1 )
For All Classical Alleles Show

Allele of Tsp3AClassMutagenStocksKnown lesion
Tsp3Ae032872 --
hide Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show

Allele of Tsp3AClassMutagenStocksKnown lesion
Tsp3AGD32072 Yes
Tsp3AKK1020650 Yes
hide Aneuploid Aberrations
Not duplicated in
(Kemppainen et al., 2009)
hide Transgenic Constructs & Insertions
Transgenic Constructs
Type of construct
Name
Expression data
UAS construct
P{GD3207}
NA
P{KK102065}
NA
Insertions
Type of insertions
Name
Expression data
miscellaneous insertions
PBac{RB}Tsp3Ae03287
NA
hide Gene Ontology: Function, Process & Cellular Component ( 2 unique terms )

There is no information supporting a molecular function term for this gene.

(Based on a review of available data on: 2011-06-28)

hide Terms Based on Experimental Evidence ( 1 term )
Molecular Function ( 0 terms)
Biological Process
CV term
Evidence
References
phagocytosis, engulfment
inferred from mutant phenotype
(Stroschein-Stevenson et al., 2006)
Cellular Component ( 0 terms)
hide Terms Based on Predictions or Assertions ( 1 term )
Molecular Function ( 0 terms)
Biological Process ( 0 terms)
Cellular Component
CV term
Evidence
References
integral to membrane
inferred from electronic annotation with InterPro:IPR000301, InterPro:IPR008952, InterPro:IPR018499
(FlyBase Curators et al., 2004-)
inferred from sequence model
(Fradkin et al., 2002)
inferred from sequence or structural similarity
(Todres et al., 2000)
hide Sequence Ontology: Class of Gene
nuclear_gene
 
protein_coding_gene
 
hide Interactions & Pathways
hide Summary of Physical Interactions
Protein-protein
Interacting group
Assay
References
hide Summary of Genetic Interactions
Interacts with
Please look at the allele data for full details of the genetic interactions
Tsp3A allele
Gene
References
hide External Data
Linkouts
DroID - A comprehensive database of gene and protein interactions.
•
hide Orthologs
Genome-wide drosophilid orthologs
Curated drosophilid orthologs
 
Linkouts
InParanoid A subset of ortholog calls from InParanoid.
•
OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs.
•
hide Stocks & Reagents
hide Stocks Listed in FlyBase ( 4 )
Bloomington
18141
PBac{RB}Tsp3Ae03287 w1118
Harvard
-
PBac{RB}Tsp3Ae03287
VDRC
v10138
w1118; P{GD3207}v10138
v10140
w1118; P{GD3207}v10140
hide Genomic Clones ( 1 )

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
hide 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 GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
hide RNAi & Array Information
Linkouts
DRSC - Results from RNAi screens.
•
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
•
hide Antibody Information
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hide Etymology
hide Identification
hide Relationship to Other Genes
Source for database identity of
Source for identity of: Tsp3A EG:BACR7C10.6
(FlyBase, 1996-)
Source for database merge of
Source for merge of: EG:BACR7C10.6 CG10742
(FlyBase, 1996-)
Additional comments
Source for identity of Tsp3A EG:BACR7C10.6 was sequence comparison (date:000815).
(FlyBase, 1996-)
Source for merge of EG:BACR7C10.6 CG10742 was sequence comparison (date:000425).
(FlyBase, 1996-)
hide Other Comments
S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.
(Stroschein-Stevenson et al., 2006)
hide External Crossreferences & Linkouts
Sequence Crossreferences
RefSeq (Transcripts)
•
RefSeq (Proteins)
•
DDBJ / EMBL / GenBank
•
Entrez Gene - A searchable database of RefSeq genes.
•
UniProtKB/TrEMBL
•
Other Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Tetraspanin (IPR018499)
Tetraspanin, subgroup (IPR000301)
Tetraspanin, EC2 domain (IPR008952)
Linkouts
DroID - A comprehensive database of gene and protein interactions.
•
DRSC - Results from RNAi screens.
•
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
•
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
•
FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
•
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
•
InParanoid A subset of ortholog calls from InParanoid.
•
modMine - Data generated by the modENCODE project.
•
OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs.
•
hide Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym
BACR7C10.6
(Seigneuret et al., 2001)
CG10742
(Fradkin et al., 2002, Seigneuret et al., 2001, Benos, 2000.12.13, Todres et al., 2000, Robertson, 2000.4.13, Kim et al., 2010, Keleman et al., 2009.8.5)
Dm.Tsp3A
(Todres et al., 2000)
EG:BACR7C10.6
(Benos et al., 2001, Benos, 2000.12.13, )
Tsp3A
(Stroschein-Stevenson et al., 2006, Kim et al., 2010, Kemppainen et al., 2009)
Name Synonym
Tetraspanin 3A
(Todres, 2000.6.1)
Secondary FlyBase IDs
  • FBgn0029630
hide References ( 24 )
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hide Recent research papers ( 1 )
Kim et al., 2010, Exp. Gerontol. 45(7-8): 611--620
Gene expression profiling implicates OXPHOS complexes in lifespan extension of flies over-expressing a small mitochondrial chaperone, Hsp22. [FBrf0210880]
Show all research papers ...