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Gene Dmel\Sema-2a

General Information
Symbol	Dmel\Sema-2a	Species	D. melanogaster
Name	Sema-2a	Annotation symbol	CG4700
Feature type	protein_coding_gene	FlyBase ID	FBgn0011260
Created / Updated	2003-12-02/2003-12-02
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	53C6-53C7	Sequence location	2R:12,387,701..12,420,934 [+]
Map ( GBrowse )	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	This gene is referred to in FlyBase by the symbol Sema-2a (CG4700, FBgn0011260). It has the cytological map location 53C6-53C7. Its sequence location is 2R:12387701..12420934. Its molecular function is described as receptor activity. It is involved in the biological processes: adult behavior; drinking behavior; flight behavior; visual behavior; axon guidance; salivary gland development; synaptic target inhibition. 11 alleles are reported. The phenotypes of these alleles are annotated with: neuromuscular junction; anterior fascicle; transverse nerve; abdominal posterior fascicle; abdominal 1 RP1 neuron; abdominal 2 RP1 neuron; abdominal 1 RP3 neuron; abdominal 2 RP3 neuron; RP3 neuron; imaginal disc. It has 4 annotated transcripts and 4 annotated polypeptides.
External Summaries
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 53C6-53C7   Limits computationally determined from genome sequence between P{lacW}l(2)k07824k07824&P{lacW}vegk03402 and P{PZ}Sema-2a03021&P{PZ}Cdk405428
Experimentally Determined Cytological Location
Cytogenetic map Notes References 53C6-53C10 (determined by in situ hybridisation)   (Spradling et al., 1999) 53C3-53C10   (BDGP Project Members, 1994-1999)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\Sema-2a for information on other features
Comments on Gene Model
	EST data support existence of multiple transcripts due to variable use of the second exon of Sema-2a-RB or Sema-2a-RA.
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Sema-2a-RA FBtr0087090  NM_058159   3525   724 Sema-2a-RB FBtr0087089  NM_134303   3426   724 Sema-2a-RC FBtr0087088  NM_166178   3500   697 Sema-2a-RD FBtr0087091  NM_206134   3256   701
Additional Transcript Data & Comments
Reported size (kB)	4.0 (northern blot) (Kolodkin et al., 1993)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein Sema-2a-PA   FBpp0086238   83.0   724   7.98     NP_477507   AAF57989 Sema-2a-PB   FBpp0086237   83.0   724   7.98     NP_599130   AAF57990 Sema-2a-PC   FBpp0086236   80.0   697   8.02     NP_725586   AAM68500 Sema-2a-PD   FBpp0089268   80.5   701   8.00     NP_995856   AAS64837
Additional Polypeptide Data & Comments
Reported size (kD)	707 (aa) (Kolodkin et al., 1993)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0011260
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • WD40/YVTN repeat-like (IPR015943) Semaphorin/CD100 antigen (IPR001627) Immunoglobulin subtype (IPR003599) Immunoglobulin-like (IPR007110) Plexin/semaphorin/integrin (IPR003659) Plexin-like fold (IPR016201)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA141641   AA201106   AA201433   AA202026   AA246757   AA263826   AA264846   AA390412   AA391479   AA392296   AA392807   AA538907   AC004432   AC005147   AC005647   AE003806 AAF57989   AE003806 AAF57990   AE003806 AAM68500   AE003806 AAS64837   AI515505   AI947018   AQ073276   AW942069   AW942079   AY095026 AAM11354   AY128437 AAM75030   BG639224   BI162559   BI165127   BI168253   BI171815   BI172622   BI215897   BI216167   BI229818   BI230837   BI233257   BI234629   BI235976   BI237666   BI239774   BI240663   BI241129   BI241884   BI243686   BI358423   BI362027   BI367713   BI374450   BI483089   BI483523   BI484006   BI484386   BI484450   BI486467   BI570372   BI577529   BI577825   BI580262   BI580895   BI613730   BP556936   BP556937   BP560064   BT011447   CK02190   CK658115   CL525990   CO177071   CO177703   CO179494   CO187281   CO187562   CO269516   CO273932   CO285597   CO291269   CO291994   CO297211   CO298360   CO298369   CO303367   CO304781   CO307786   CO308368   CO308481   CO316346   CO322194   CO324215   CO324684   CO331422   CO332739   CZ482468   CZ489243   CZ489244   DN154338   EC066262   EC067656   EC080283   EC198074   EC214471   EC217953   EC219582   EC224191   EC226501   EC226715   EC231228   EC236502   EC245976   EC246974   EC249550   L26083 AAC37187
UniProtKB/Swiss-Prot	Q24323
UniProtKB/TrEMBL
Maps to	DS03836 DS02829 (FlyBase, 1992-)
Does NOT map to
Identified with	LD09561 RE45189 (BDGP Project Members, 2000-) LD09306 (Spradling et al., 1999, BDGP Project Members, 2000-) Dm0313 (BDGP Project Members, 1994-1999, Spradling et al., 1999)
Mapped Features & Mutations
Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here Type Symbol & Location Additional Notes References
External Data
Linkouts	DEDB - Drosophila exon database: splicing graphs • 12249
Crossreferences
Expression Data
FlyBase-Curated Data
Transcript and Protein data	Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
Summary of Transcript Expression
Stage Tissue/Position Reference  embryonic stage | stage 10  epidermis | stripes (Kolodkin et al., 1993)  embryonic stage | stage >=15  central nervous system | restricted (Kolodkin et al., 1993)  embryonic stage | stage >=14  hypodermal muscle of metathorax | ventral (Kolodkin et al., 1993)  embryonic stage  gonad (Kolodkin et al., 1993)  embryonic stage  sense organ | anterior (Kolodkin et al., 1993)  embryonic stage  embryonic neuron (Kolodkin et al., 1993)
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference
Marker for
Subcellular Localization
CV Term
Microarray Data
	Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002) AI515505
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0011260 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0011260 BDGP expression data • Show all BDGP original images, annotations and embryonic microarray data for Sema-2a FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Sema-2a Stage(s) 1-3 Stage(s) 4-6 Stage(s) 7-8 Stage(s) 11-12 Stage(s) 13-16
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable Sema-2aCA06989 Sema-2aEY08184 lethal | recessive Sema-2a03021 Sema-2a03474 Sema-2ak11240 Other Phenotypes Allele behavior defective | recessive Sema-2a03021 Sema-2a03474 flightless | recessive Sema-2a03021 Sema-2a03474 Sterility Allele fertile Sema-2aEY08184 Phenotype manifest in Allele abdominal ventral longitudinal muscle 2 & neuromuscular junction Sema-2a03021 Sema-2a03474 Sema-2aex59 abdominal ventral longitudinal muscle 3 & neuromuscular junction Sema-2a03021 Sema-2a03474 Sema-2aex59 abdominal ventral longitudinal muscle 4 & neuromuscular junction Sema-2a03021 Sema-2a03474 Sema-2aex59 abdominal segment border muscle & neuromuscular junction Sema-2a03021 Sema-2a03474 Sema-2aex59 neuromuscular junction | ectopic Sema-2a03021 Sema-2a03474 Sema-2aex59 abdominal lateral oblique muscle 1 & neuromuscular junction Sema-2a03021 Sema-2a03474 Sema-2aex59 anterior fascicle Sema-2a03021 Sema-2a03474 Sema-2aex59 transverse nerve Sema-2a03021 Sema-2a03474 Sema-2aex59 abdominal posterior fascicle Sema-2a03021 Sema-2a03474 Sema-2aex59 transverse nerve, with Scer\GAL4how-24B Sema-2aScer\UAS.cKa transverse nerve, with Scer\GAL4A51 Sema-2aScer\UAS.cKa abdominal 1 RP1 neuron Sema-2ahs.Tl abdominal 2 RP1 neuron Sema-2ahs.Tl abdominal 1 RP3 neuron Sema-2ahs.Tl abdominal 2 RP3 neuron Sema-2ahs.Tl RP3 neuron Sema-2ahs.Tl imaginal disc Sema-2ak11240
Classical Alleles ( 8 )
For All Classical Alleles Show
Allele of Sema-2a Class Mutagen Stocks Known lesion Sema-2a03021 amorph, loss of function P-element activity Δ2-3 1 Yes Sema-2a03474 loss of function P-element activity Δ2-3 0 Yes Sema-2aCA06989 P-element activity 0 Yes Sema-2aEY08184 P-element activity 1 -- Sema-2ae04687 piggyBac transposase 1 -- Sema-2aex59 0 -- Sema-2af06535 piggyBac transposase 1 -- Sema-2ak11240 P-element activity 2 --
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Sema-2a Class Mutagen Stocks Known lesion Sema-2aGD5476 in vitro construct | RNAi in vitro construct | regulatory fusion 2 Yes Sema-2aScer\UAS.cKa in vitro construct | regulatory fusion 0 -- Sema-2ahs.Tl in vitro construct | regulatory fusion 0 Yes
Aneuploid Aberrations
Useful duplication	Dp(2;2)SMG45
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD5476} NA P{UAS-sema-II.K} NA heat-shock construct P{pCaSpeR-Toll-semaII} NA
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{RB}Sema-2ae04687 NA PBac{WH}Sema-2af06535 NA P{PTT-GA}Sema-2aCA06989 NA insertion of enhancer trap P{PZ}Sema-2a03021 Yes P{PZ}Sema-2a03474 Yes P{lacW}Sema-2ak11240 No insertion of mobile activating element P{EPgy2}Sema-2aEY08184 NA
Related Comments
	Please look at the allele reports for the complete phenotype data Genetic analysis reveals that semaII is an essential gene required for both proper adult behaviour and survival. (Kolodkin et al., 1993) Sema-2a can function as a inhibitory signal during target recognition, it inhibits two identified motoneuron growth cones RP3 and DC1 from forming normal synaptic terminal aborizations on their target muscles. RP1 and RP4 are unresponsive to contact with Sema-2a. (Matthes et al., 1995) Mutants isolated in a screen of the second chromosome identifying genes affecting disc morphology. (Roch et al., 1998)
Gene Ontology: Function, Process & Cellular Component ( 10 )
Molecular Function
CV term Evidence References
receptor activity inferred from electronic annotation with InterPro:IPR016201