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Gene Dmel\ssp2

General Information
Symbol	Dmel\ssp2	Species	D. melanogaster
Name	short spindle 2	Annotation symbol	CG9028
Feature type	protein_coding_gene	FlyBase ID	FBgn0036389
Gene Model Status	Current	Stock availability	10 publicly available
Genomic Location
Chromosome (arm)	3L	Recombination map
Cytogenetic map	70C7-70C9	Sequence location	3L:13,958,303..13,965,106 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene short spindle 2 is referred to in FlyBase by the symbol Dmel\ssp2 (CG9028, FBgn0036389). 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: mitotic spindle elongation; microtubule cytoskeleton organization; regulation of response to DNA damage stimulus. 11 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages, in adult female stages. Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression in all larval and adult organs/tissues ranges from low to undetected. Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult central nervous system, adult crop, larval salivary gland, adult ovary, adult carcass. Gene sequence location is 3L:13958303..13965106.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
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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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 70C7-70C9   Limits computationally determined from genome sequence between P{EP}EP3561EP3561 and P{PZ}l(3)70Da02402&P{PZ}btl00208
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\ssp2 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Complete overlap: transcripts of this gene are completely overlapped by those of a second gene on the same strand. Gene model reviewed during 5.46 Low-frequency RNA-Seq exon junction(s) not annotated.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) ssp2-RA FBtr0075759  NM_140415   3435   982
Additional Transcript Data & 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 protein ssp2-PA   FBpp0075501   106.6   982   5.25     NP_648672   AAF49784
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA390999   AA391288   AA391642   AA440348   AA536528   AA941879   AE014296 AAF49784   AI107478   AI516257   AI520081   AI533269   AI533287   AI546254   AQ073117   AW943596   AY051947 AAK93371   BE978304   BG638497   BI161582   BI161583   BI162042   BI165243   BI169434   BI229829   BI235774   BI235781   BI238029   BI238738   BI239575   BI239628   BI241092   BI243443   BI357795   BI363494   BI371743   BI371847   BI372288   BI486096   BI635298   BI638623   BT021396 AAX33544   BZ286407   BZ748819   CK660619   CO152866   CO156285   CO263048   CO266180   CO271825   CO280388   CO280548   CO286843   CO287358   CO291007   CO300688   CO310552   CO316593   CO318561   CO326621   CO336435   CO337083   CZ476934   DN154519   EC059618   EC061534   EC066880   EC071234   EC073331   EC077981   EC078837   EC080980   EC196509   EC199343   EC200919   EC215331   EC221101   EC229177   EC234422   EC254159   EC260118   EC261169   EC264478   EC267803   EV575679   EV593872
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9VUA5
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
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 3   organism   (Fisher et al., 2012) Comment:maternally deposited embryonic stage 4 -- 6   organism   (Fisher et al., 2012) embryonic stage 7 -- 8   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 9 -- 10   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 11 -- 12   organism | ubiquitous   (Fisher et al., 2012) embryonic stage 13 -- 16   organism | ubiquitous   (Fisher et al., 2012)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (FlyAtlas-RNA.adult) (FlyAtlas-RNA.larva)    Styles Linear Logarithmic Heatmap Back-to-back    Scales gene max expression Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Two or more Affy2 ProbeSets identify exons of this gene. This is a summary of the tissue expression peaks exhibited in at least one of these ProbeSets. Expression in all larval and adult organs/tissues ranges from low to undetected. Expression at moderate levels in the following post-embryonic organs or tissues: larval/adult central nervous system, adult crop, larval salivary gland, adult ovary, adult carcass. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (>999.999) Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland     Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland     Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland     Adult Carcass     FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Treatments RNA-Seq
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010, Graveley et al., 2011) mE2_34_mRNA_expression_cluster_01 mE1_20_mRNA_expression_cluster_03
External Data & Images
Linkouts	BDGP expression data • LD42058 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0036389 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9028-RA;CG9028-RB
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 ssp2GD14520 Other Phenotypes Allele stress response defective ssp2BG01472 Phenotype manifest in Allele
Classical Alleles ( 8 )
For All Classical Alleles Show
Allele of ssp2 Class Mutagen Stocks Known lesion ssp2d09771 P-element activity 1 -- ssp2EY00443 P-element activity 1 -- ssp2EY01356 P-element activity 1 -- ssp2f01928 1 -- ssp2G8836 P-element activity 1 -- ssp2BG01472 0 Yes ssp2CPTI000635 piggyBac transposase 0 Yes ssp2EP3685 P-element activity 0 --
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of ssp2 Class Mutagen Stocks Known lesion ssp2GD14520 in vitro construct - RNAi in vitro construct - regulatory fusion 3 Yes ssp2GL01265 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes ssp2KK107135 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{KK107135} NA P{TRiP.GL01265} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EP}ssp2EP3685 NA P{EP}ssp2G8836 NA P{EPgy2}ssp2EY00443 NA P{EPgy2}ssp2EY01356 NA P{XP}ssp2d09771 NA miscellaneous insertions P{GT1}ssp2BG01472 NA PBac{602.P.SVS-1}ssp2CPTI000635 NA PBac{PB}Nxf3c02326 NA PBac{WH}ssp2f01928 NA
Gene Ontology: Function, Process & Cellular Component ( 3 unique terms )
Terms Based on Experimental Evidence ( 3 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
microtubule cytoskeleton organization inferred from direct assay (Li et al., 2011) mitotic spindle elongation inferred from mutant phenotype (Goshima et al., 2007) regulation of response to DNA damage stimulus inferred from genetic interaction with lok (Park and Song, 2008)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 0 terms )
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
protein-protein
Interacting group Assay References
ssp2 - Eb1 anti bait coimmunoprecipitation, western blot, pull down, anti tag western blot (Li et al., 2011) ssp2 - mael anti bait coimmunoprecipitation, peptide massfingerprinting (Sato et al., 2011)
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions ssp2 allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 64880 DroID - A comprehensive database of gene and protein interactions. • FBgn0036389 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39540
Orthologs
OrthoDB Orthologs (12) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6S1TSS Dipteran inclusive ortholog search No orthologs identified Insect inclusive ortholog search No orthologs identified Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Orthologs in Drosophila Species (EOG6S1TSS)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\ssp2     Drosophila simulans   Dsim\GD14465     Drosophila sechellia   Dsec\GM25438     Drosophila erecta   Dere\GG15659     Drosophila yakuba   Dyak\GE21988     Drosophila ananassae   Dana\GF24051     Drosophila pseudoobscura pseudoobscura   Dpse\GA23771     Drosophila persimilis   Dper\GL15718     Drosophila willistoni   Dwil\GK12426     Drosophila virilis   Dvir\GJ14104     Drosophila mojavensis   Dmoj\GI11312 Y   Drosophila grimshawi   Dgri\GH17202 Y
Orthologs in non-Drosophila Dipterans (None identified)
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (None identified)
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (None identified)
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (None identified)
No non-Arthropod Metazoa orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (2) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila mojavensis Dmoj\GI11312 Drosophila grimshawi Dgri\GH17202
Stocks & Reagents
Stocks Listed in FlyBase ( 10 )
Bloomington	41837 y1 v1; P{TRiP.GL01265}attP2 14850 y1 w67c23; P{EPgy2}ssp2EY00443 15345 y1 w67c23; P{EPgy2}ssp2EY01356 28498 y1 w*; P{EP}ssp2G8836 Nxf3G8836
Harvard	- P{XP}ssp2d09771 - PBac{WH}ssp2f01928
VDRC	v105723 P{KK107135}VIE-260B v36377 w1118 P{GD14520}v36377 v47774 w1118; P{GD14520}v47774 v47773 w1118; P{GD14520}v47773/CyO
Genomic Clones ( 2 )
	BACR02M20 BACR35M01 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 74 )
	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	LD42058
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	GH05178 LD09888 LD09963 LD10662 LD17175 LD40038 LD47779 LP19348 RE05089 RE10608 RE27693 RE31695 RE31706 RE34390 RE35259 RE36110 RE36172 RE38107 RE41086 RE44366 RE48317 RE58696 RE58854 RE59219 RE69469 SD05029 SD05048 SD16605 SD20963
Other clones	21211 35206 40154 40578 54354 67298 161449 161475 173230 190772 214311.51 214505.46 475292 525797 557854 bs76g12 CK01.14A.D5 CK01.63D.B12 CK01.97D.H8 CK01.122A.F5 CK01.125B.G9 Dmel_dig_001411_0645_0507 Dmel_neb_015780_0662_1123 EK052038 EK064037 EK065639 EK075764 EK087206 EK104802 EK145230 EK153937 EK154324 EK179120 EK222003 EK265345 EK272813 EN00626 EN07745 EN12529 EN13808 EP04326 LD27194 RE01059 RE01467
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0036389 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39540
Antibody Information
	polyclonal (Li et al., 2011)
Other Information
Discoverer
Etymology
	Called 'sentin' from the Japanese word "Sentan", which means "tip". (Li et al., 2011)
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: ssp2 CG9028 (Goshima et al., 2007)
Source for database merge of
Additional comments
Other Comments
	RNAi screen using dsRNA made from templates generated with primers directed against this gene results in aberrantly short spindles when assayed in S2 cells. This phenotype can be observed when the screen is performed with or without Cdc27 dsRNA. (Goshima et al., 2007)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_140415 RefSeq (Proteins) • NP_648672 DDBJ / EMBL / GenBank • AA440348 AAF49784 AAK93371 AAX33544 AI516257 AQ073117 AW943596 AY051947 BT021396 BZ286407 BZ748819 CZ476934 Entrez Gene - A searchable database of RefSeq genes. • 39540 UniProtKB/TrEMBL • Q9VUA5
Other Crossreferences
	BDGP expression data - Patterns of gene expression in Drosophila embryogenesis • LD42058
Linkouts
	BioGRID - A database of protein and genetic interactions • 64880 DroID - A comprehensive database of gene and protein interactions. • FBgn0036389 DRSC - Results from RNAi screens. • FBgn0036389 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0036389 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG9028-RA;CG9028-RB FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0036389 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 39540 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 39540 modMine - Data generated by the modENCODE project. • FBgn0036389
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG9028 (Goshima et al., 2007, Keleman et al., 2009.8.5, Li et al., 2011, Ni et al., 2010.12.1) ssp2 (Sato et al., 2011, Li et al., 2011) Ssp2 (Goshima et al., 2007)
Name Synonym	CG9028   sentin (Li et al., 2011) short spindle (Park and Song, 2008) short spindle 2 (Park and Song, 2008)
Secondary FlyBase IDs
References ( 22 )
Generate a list of	All references relating to this gene ( 22 )
List References by type	Research paper  ( 6 ) Supplementary material  ( 5 ) Personal communication to FlyBase  ( 8 ) FlyBase analysis  ( 2 ) Website  ( 1 )
Recent research papers ( 4 )
	Li et al., 2012, J. Cell Biol. 199(5): 849--862 Reconstitution of dynamic microtubules with Drosophila XMAP215, EB1, and Sentin. [FBrf0219965] Weber et al., 2012, PLoS ONE 7(4): e34745 Genome-Wide Association Analysis of Oxidative Stress Resistance in Drosophila melanogaster. [FBrf0218073] Li et al., 2011, J. Cell Biol. 193(6): 973--983 EB1 promotes microtubule dynamics by recruiting Sentin in Drosophila cells. [FBrf0213911] Sato et al., 2011, Genes Dev. 25(22): 2361--2373 Maelstrom coordinates microtubule organization during Drosophila oogenesis through interaction with components of the MTOC. [FBrf0216748] Show all research papers ...