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Gene Dmel\sdk

General Information
Symbol	Dmel\sdk	Species	D. melanogaster
Name	sidekick	Annotation symbol	CG5227
Feature type	protein_coding_gene	FlyBase ID	FBgn0021764
Created / Updated	2005-09-09/2005-09-09
Genomic Location
Chromosome (arm)	X	Recombination map	1-
Cytogenetic map	1C2-1C3	Sequence location	X:580,873..643,531 [+]
Map ( GBrowse )	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene sidekick is referred to in FlyBase by the symbol sdk (CG5227, FBgn0021764). It has the cytological map location 1C2-1C3. Its sequence location is X:580873..643531. Its molecular function is unknown. It is involved in the biological processes: pigment cell differentiation; cell adhesion; compound eye cone cell differentiation; negative regulation of photoreceptor cell differentiation. 17 alleles are reported. The phenotypes of these alleles are annotated with: eye; photoreceptor; mystery cell; pigment cell; ommatidium; interommatidial bristle; lens; cone cell. It has 4 annotated transcripts and 4 annotated polypeptides.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 1C2-1C3   Limits computationally determined from genome sequence between P{EP}DreddEP1412&P{EP}Suv4-20EP1216a and P{EP}sdkEP369
Experimentally Determined Cytological Location
Cytogenetic map Notes References 1B14-1C1   (Nguyen, 1997.2.5) 1B14-1C1 (determined by in situ hybridisation)   (Nguyen et al., 1997)
Experimentally Determined Recombination Data
Location	1- (Nguyen et al., 1997)
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References In direction of increasing cytology: sdk+ CG5254+ CG5273+ RpL22- (Benos, 1999.12.13) Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\sdk for information on other features
Comments on Gene Model
	DGC clone appears problematic: [DGC:LD22322] incomplete CDS Sequence error at position X:587140 (inserted T) leads to premature translation stop in fifth exon. Will be corrected in future release. DGC clone appears problematic: [DGC:RE63453] genomic contaminant. Replace with wild type sequence from GenBank accession U88578
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) sdk-RA FBtr0070133  NM_057941   8839   2224 sdk-RB FBtr0070132  NM_134314   8904   2224 sdk-RC FBtr0070131  NM_057942   8980   2232 sdk-RD FBtr0070130  NM_134315   8956   2224
Additional Transcript Data & Comments
Reported size (kB)	9.4 (longest cDNA) (Nguyen et al., 1997)
Comments	sdk cDNAs isolated differ in their first exon splice donor sites; 3 different splice donor sites have been identified. One of the sdk cDNAs isolated retains a microexon not retained by the other cDNAs, resulting in a predicted protein 9 amino acids longer than that predicted for the others. (Nguyen et al., 1997, Nguyen et al., 1997, Nguyen et al., 1997)
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein sdk-PA   FBpp0070128   246.3   2224   6.48     NP_477289   AAN09027 sdk-PB   FBpp0070127   246.3   2224   6.48     NP_599141   AAF45541 sdk-PC   FBpp0070126   247.2   2232   6.48     NP_477290   AAN09028 sdk-PD   FBpp0070125   246.3   2224   6.48     NP_599142   AAN09029
Additional Polypeptide Data & Comments
Reported size (kD)	2231, 2222 (aa); 240 (kD predicted) (Nguyen et al., 1997)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0021764
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Immunoglobulin subtype 2 (IPR003598) Immunoglobulin subtype (IPR003599) Fibronectin, type III (IPR003961) Fibronectin, type III subdomain (IPR003962) Immunoglobulin-like (IPR007110) Fibronectin, type III-like fold (IPR008957) Immunoglobulin I-set (IPR013098) Immunoglobulin (IPR013151) Immunoglobulin-like fold (IPR013783)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA141925   AA264526   AA816933   AA817156   AA817246   AA942360   AC103548   AE003418 AAF45541   AE003418 AAN09027   AE003418 AAN09028   AE003418 AAN09029   AF132195 AAD34783   AI239119   AI455256   AI516569   AI519340   AI519764   AQ025326   BG637898   BG638931   BG638952   BH759362   BI375601   BP555399   BT003475 AAO39478   BT029126   CK00099   CO186678   CO190530   CO265522   CO266688   CO267057   CO271860   CO279774   CO288496   CO293467   CO299690   CO316891   CO319228   CO319790   CO320615   CO320668   CO320803   CO324464   CO324711   CO330448   CO331144   CZ467094   CZ467095   CZ472758   CZ478469   CZ482746   CZ482747   CZ489175   EC058014   EC058679   EC062269   EC063743   EC072858   EC075565   EC083920   EC084500   EC194885   EC204595   EC205949   EC209552   EC210296   EC210450   EC215924   EC221362   EC227659   EC238529   EC251020   EC252110   EC254050   EL884889   EL885009   LD38885   U88578 AAD09632
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	O97394 Q7KN65 Q86P54
Maps to	FBcl0297254 (FlyBase, 1992-)
Does NOT map to
Identified with	GM02010 (Benos et al., 2001) LD22322 RE63453 (BDGP Project Members, 2000-)
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 aberration junction T(1;3)sdk[N23].bk X:588,868..605,278 evidence=experimental comment=aberration breakpoint localized to a restriction fragment; position of restriction fragment on reference sequence inferred by FlyBase curator linked_to=KpnI-KpnI_rfrag (Nguyen et al., 1997) aberration junction sdk[7AX] X:588,868..606,529 comment=second inversion breakpoint localized to a restriction fragment; position of restriction fragment on reference sequence inferred by FlyBase curator evidence=experimental linked_to=KpnI-KpnI_rfrag (Nguyen et al., 1997) deletion sdk[D14] X:637,558..637,562 comment=5 bp deletion evidence=experimental (Nguyen et al., 1997)
External Data
Linkouts
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
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) AI519764 AI519340
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0021764 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0021764
Alleles & Phenotypes
Summary of Allele Phenotypes
Other Phenotypes Allele visible | recessive sdkP1 Phenotype manifest in Allele eye sdk7AX sdkD14 sdkN23 sdkN6 sdkP1 photoreceptor sdkP1 mystery cell sdkP1 pigment cell sdkP1 ommatidium sdkP1 interommatidial bristle sdkP1 lens sdkP1 cone cell sdkP1
Classical Alleles ( 14 )
For All Classical Alleles Show
Allele of sdk Class Mutagen Stocks Known lesion sdk7AX loss of function γ ray 0 Yes sdkD14 loss of function γ ray 0 Yes sdkEP369 P-element activity 2 Yes sdkEY20845 P-element activity 1 -- sdkKG03008 P-element activity 1 -- sdkN23 loss of function γ ray 0 Yes sdkN6 loss of function γ ray 0 -- sdkP1 amorph Δ2-3 0 Yes sdkc01355 piggyBac transposase 0 -- sdkd02333 P-element activity 1 -- sdke00599 piggyBac transposase 1 -- sdkf00263 piggyBac transposase 1 -- sdkf06472 piggyBac transposase 1 -- sdk[MB05054] 1 --
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of sdk Class Mutagen Stocks Known lesion sdkGD14485 in vitro construct | RNAi in vitro construct | regulatory fusion 0 Yes sdkGD2553 in vitro construct | RNAi in vitro construct | regulatory fusion 1 Yes sdkGD57 in vitro construct | RNAi in vitro construct | regulatory fusion 0 Yes
Aneuploid Aberrations
Useful deficiency	Df(1)tR15
Useful duplication	Dp(1;2)E1
Disrupted in	T(1;3)sdkN23 (Nguyen et al., 1997)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD14485} NA P{GD2553} NA P{GD57} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EPgy2}sdkEY20845 NA P{EP}sdkEP369 NA P{XP}sdkd02333 NA miscellaneous insertions PBac{PB}sdkc01355 NA PBac{RB}sdke00599 NA PBac{WH}sdkf00263 NA PBac{WH}sdkf06472 NA P{SUPor-P}sdkKG03008 NA P{}sdkP1 NA insertion of enhancer trap binary system Mi{ET1}sdkMB05054 No
Related Comments
	Please look at the allele reports for the complete phenotype data sdk shows no genetic interaction with faf, gro, argos, Sos, Gap1, Ras85D, Egfr, phl or aop. (Nguyen et al., 1997)
Gene Ontology: Function, Process & Cellular Component ( 5 )
Molecular Function
CV term Evidence References
Biological Process
CV term Evidence References
cell adhesion non-traceable author statement (Jasper et al., 2002)
compound eye cone cell differentiation inferred from mutant phenotype (Nguyen et al., 1997)
negative regulation of photoreceptor cell differentiation inferred from mutant phenotype (Nguyen et al., 1997)
pigment cell differentiation inferred from mutant phenotype (Nguyen et al., 1997)
Cellular Component
CV term Evidence References
integral to plasma membrane non-traceable author statement (Vogel et al., 2003)
Sequence Ontology: Class of Gene
	protein_coding_gene   nuclear_gene
Interactions & Pathways
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions sdk allele Gene References
External Data
Linkouts	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 57585
Orthologs
Genome-wide drosophilid orthologs	Dpse\GA27700 Dana\GF21177 Dere\GG12806 Dgri\GH17660 Dmoj\GI21512 Dper\GL21374 Dsim\GD16523 Dvir\GJ19051 Dwil\GK16432 Dyak\GE16632
Curated drosophilid orthologs	Dpse\GA18751
Linkouts	InParanoid orthologs - Eukaryotic orthologs • MGI:2443847 Mus musculus (Informatics) WBGene00004371 Caenorhabditis elegans (Wormbase) WBGene00037279 Caenorhabditis briggsae (Wormbase) ENSXETP00000010092 Xenopus tropicalis (Ensembl) GSTENP00027006001 Tetraodon nigroviridis (Ensembl) ENSRNOP00000033098 Rattus norvegicus (Ensembl) ENSPTRP00000016310 Pan troglodytes (Ensembl) ENSMODP00000000278 Monodelphis domestica (Ensembl) ENSMMUP00000025926 Macaca mulatta (Ensembl) ENSP00000324384 Homo sapiens (Ensembl) ENSGALP00000007092 Gallus gallus (Ensembl) NEWSINFRUP00000158433 Takifugu rubripes (Ensembl) ENSCAFP00000006708 Canis familiaris (Ensembl) ENSBTAP00000015025 Bos taurus (Ensembl) ENSANGP00000001527 Anopheles gambiae (Ensembl)
Functional Complementation between Species
Inter-Species Misexpression Data
Produces phenotype in
Produces NO phenotype in
Stocks & Reagents
Stocks Listed in FlyBase ( 10 )
Szeged	- P{EP}sdkEP369
Harvard	- P{XP}sdkd02333 - PBac{RB}sdke00599 - PBac{WH}sdkf00263 - PBac{WH}sdkf06472
VDRC	v9437 w1118; P{GD2553}v9437
Bloomington	10054 P{EP}sdkEP369 w1118 13560 y1 P{SUPor-P}sdkKG03008 24603 Mi{ET1}sdkMB05054 w1118 22432