A Database of Drosophila Genes & Genomes

FB2012_01, released January 20th, 2012
 

Gene Dmel\Tmhs

General Information
SymbolDmel\TmhsSpeciesD. melanogaster
NameTetraspan membrane protein in hair cell stereocilia orthologAnnotation symbolCG12026
Feature typeprotein_coding_geneFlyBase IDFBgn0262624
Gene Model StatusCurrent Stock availability 7 publicly available
Also Known Asl(3)neo7
Genomic Location
Chromosome (arm)3LRecombination map3-1.4
Cytogenetic map62B9-62B9Sequence location3L:1,885,659..1,891,470 [+]

Genomic Maps

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modENCODE GBrowse
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Automatically generated summary

See sections below for more information
The gene Tetraspan membrane protein in hair cell stereocilia ortholog is referred to in FlyBase by the symbol Dmel\Tmhs (CG12026, FBgn0262624). 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: sensory perception of sound. 7 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Lipoma HMGIC fusion partner-like protein. Gene sequence location is 3L:1885659..1891470.

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Description
What does this section display?
This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms).
What does this section not display?
This section does not currently display links that were removed or gene model changes.
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atom feed
FB2011_10
FB2012_01
Sequence features
BKN29045
HFA08231
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
62B9-62B9  
Left limit from inclusion within Df(3L)Aprt-66 (FBrf0076966) Right limit from non-inclusion within Df(3L)Aprt-166 (FBrf0076966)  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
62B1-62B12  
(determined by in situ hybridisation)  
(Spradling et al., 1999)
62B1-62B12  
(determined by in situ hybridisation)  
(BDGP Project Members, 1994-1999)
62B-62B  
(determined by in situ hybridisation)  
(Cooley et al., 1988)
Experimentally Determined Recombination Data
Location
3-1.4
 
Left of (cM)
Right of (cM)
Notes
hide Gene Model & Products
Please see the GBrowse view of Dmel\Tmhs for information on other features
To submit a correction to a gene model please use the Contact FlyBase form
detailed view FBtr0089420 FBtr0072836 FBtr0072837 FBtr0310544 FBtr0273261 FBpp0088438 FBpp0072716 FBpp0072717 FBti0069859 FBti0021945 FBti0112790 FBti0108003 FBti0040190 FBti0074999 FBti0066034 FBti0066033
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
Tmhs-RA
FBtr0072837
 NM_139417
  1461
  265
Tmhs-RB
FBtr0072836
 NM_167926
  1419
  265
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
Tmhs-PA  
FBpp0072717  
29.8  
265  
7.62  
  NP_647674
  AAF47590
Tmhs-PB  
FBpp0072716  
29.8  
265  
7.62  
  NP_728691
  AAN11506
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
Lipoma HMGIC fusion partner-like protein (IPR019372)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA802521
 
AE014296
AAF47590
 
AE014296
AAN11506
 
AI296401
 
AW944127
 
AY052063
AAK93487
 
BG632882
 
BI169467
 
BI169722
 
BI213301
 
BI234443
 
BI352201
 
BI352895
 
BI368268
 
BI369653
 
CO280077
 
EC057952
 
GH739816
 
GH741850
 
GH742678
 
GH743382
 
GH743444
 
GH744685
 
GH744714
 
GH745011
 
GH745236
 
GH746566
 
GH746653
 
GH747451
 
GH763024
 
GH765523
 
GH765598
 
GH767385
 
GH769867
 
GH770081
 
GO254433
 
 
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 Aprt-RA Tmhs-RB Tmhs-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
hide Alleles & Phenotypes
hide Summary of Allele Phenotypes
Lethality
Allele
lethal
lethal | larval stage
lethal | polyphasic | recessive
lethal | recessive
semi-lethal | pupal stage, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4pnr-MD237
Other Phenotypes
Allele
auditory perception defective | dominant
neurophysiology defective | dominant
Phenotype manifest in
Allele
hide Classical Alleles ( 4 )
For All Classical Alleles Show

Allele of TmhsClassMutagenStocksKnown lesion
Tmhs11 --
Tmhsc05839a
1 --
Tmhsc05839b
1 --
Tmhs20 --
hide Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show

Allele of TmhsClassMutagenStocksKnown lesion
TmhsGD155822 Yes
TmhsGD4422 Yes
TmhsKK1090451 Yes
hide Aneuploid Aberrations
Disrupted in
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Not disrupted in
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(Spradling et al., 1999, BDGP Project Members, 1994-1999)
hide Transgenic Constructs & Insertions
Transgenic Constructs
Type of construct
Name
Expression data
Insertions
Type of insertions
Name
Expression data
miscellaneous insertions
P{hsneo}Tmhs1
NA
PBac{PB}Tmhsc05839a
NA
PBac{PB}Tmhsc05839b
NA
hide Gene Ontology: Function, Process & Cellular Component ( 1 unique term )
hide Terms Based on Experimental Evidence ( 1 term )
Molecular Function ( 0 terms)
Biological Process
CV term
Evidence
References
sensory perception of sound
inferred from mutant phenotype
(Cosetti et al., 2008)
Cellular Component ( 0 terms)
hide Terms Based on Predictions or Assertions ( 0 terms )
hide Sequence Ontology: Class of Gene
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
Tmhs 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
hide Stocks & Reagents
hide Stocks Listed in FlyBase ( 7 )
Bloomington
10246
mwh1 P{hsneo}Tmhs1 red1 e1/TM3, ryRK Sb1 Ser1
Harvard
-
PBac{PB}Tmhsc05839a, PBac{PB}Tmhsc05839b
VDRC
v102005
P{KK109045}VIE-260B
v42480
w1118; P{GD442}v42480
v43386
w1118 P{GD15582}v43386
v43385
w1118; P{GD15582}v43385
v42482
w1118; P{GD442}v42482/TM3
hide Genomic Clones ( 2 )

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
hide cDNA Clones ( 33 )

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
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
•
hide Antibody Information
hide Other Information
hide Discoverer
hide Etymology
hide Identification
hide Relationship to Other Genes
Source for database identity of
Source for identity of: Tmhs CG12026
(Cosetti et al., 2008)
Source for database merge of
Source for merge of: CG12026 l(3)62Be
(Cosetti et al., 2008)
Additional comments
hide Other Comments
Recessive lethal mutations in this complementation group were identified by failure to complement the recessive lethality of Df(3L)R-R2.
(Sliter et al., 1989)
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
•
Lipoma HMGIC fusion partner-like protein (IPR019372)
Linkouts
DroID - A comprehensive database of gene and protein interactions.
•
GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents
•
hide Synonyms & Secondary IDs ( 9 )
Reported As
Symbol Synonym
CG12026
(Keleman et al., 2009.8.5, Nelson et al., 2010, Cosetti et al., 2008)
l(3)62Be
 
l(3)neo7
(Lee et al., 1993, Sliter et al., 1989, Lindsley and Zimm, 1992, )
neo7
(Machado and Andrew, 2000)
Tmhs
 
TMHS
(Cosetti et al., 2008)
Name Synonym
lethal (3) 62Be
 
tetraspan membrane protein in hair cell stereocilia
(Cosetti et al., 2008)
Tetraspan membrane protein in hair cell stereocilia ortholog
 
Secondary FlyBase IDs
  • FBgn0002181
  • FBgn0035289
hide References ( 18 )
Research paper
Nelson et al., 2010, Genetics 185(3): 831--839
The Drosophila Claudin Kune-kune Is Required for Septate Junction Organization and Tracheal Tube Size Control. [FBrf0211332]
Cosetti et al., 2008, Ann. Otol. Rhinol. Laryngol. 117(11): 827--833
Unique transgenic animal model for hereditary hearing loss. [FBrf0206525]
Page et al., 2005, EMBO J. 24(24): 4304--4315
Spotted-dick, a zinc-finger protein of Drosophila required for expression of Orc4 and S phase. [FBrf0190363]
Machado and Andrew, 2000, J. Cell Biol. 151(3): 639--651
D-TITIN: a giant protein with dual roles in chromosomes and muscles. [FBrf0131354]
Spradling et al., 1999, Genetics 153(1): 135--177
The Berkeley Drosophila genome project gene disruption project. Single P-element insertions mutating 25% of vital Drosophila genes. [FBrf0111489]
Wang et al., 1994, Molec. gen. Genet. 245(5): 598--607
Mapping a mutator, mu2, which increases the frequency of terminal deletions in Drosophila melanogaster. [FBrf0076966]
Lee et al., 1993, J. Cell Biol. 123(6 Pt. 2): 1797--1809
Cell shape and interaction defects in -spectrin mutants of Drosophila melanogaster. [FBrf0068573]
Sliter et al., 1989, Genetics 123: 327--336
The genetics of the Dras3-Roughened-ecdysoneless chromosomal region (62B3-4 to 62D3-4) in Drosophila melanogaster: analysis of recessive lethal mutations. [FBrf0049893]
Cooley et al., 1988, Science 239: 1121--1128
Insertional mutagenesis of the Drosophila genome with single P-elements. [FBrf0049003]
Supplementary material
The modENCODE Consortium, 2010, Science 330(6012):
DataS14: Gene co-expression clusters. [FBrf0213979]
Mummery-Widmer et al., 2009, Nature 458(7241):
Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518]
Personal communication to FlyBase
Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center
RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510]
Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center
RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327]
FlyBase analysis
FlyBase Curators, 2008, Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations.
Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations. [FBrf0202955]
FlyBase, 1992-, FlyBase curation
FlyBase curation. [FBrf0105495]
Book
Lindsley and Zimm, 1992, The Genome of Drosophila melanogaster.
The Genome of Drosophila melanogaster. [FBrf0066905]
Computer file
BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.
Berkeley Drosophila Genome Project. [FBrf0125078]
BDGP Project Members, 1994-1999, Berkeley Drosophila Genome Project.
Berkeley Drosophila Genome Project. [FBrf0067338]