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Gene Dmel\δCOP

General Information
Symbol	Dmel\δCOP	Species	D. melanogaster
Name	δ-coatomer protein	Annotation symbol	CG14813
Feature type	protein_coding_gene	FlyBase ID	FBgn0028969
Created / Updated	2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	2B12-2B13	Sequence location	X:1,753,176..1,755,825 [-]
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 δ-coatomer protein is referred to in FlyBase by the symbol δCOP (CG14813, FBgn0028969). It has the cytological map location 2B12-2B13. Its sequence location is X:1753176..1755825. Its molecular function is described as protein binding. It is involved in the biological processes: retrograde vesicle-mediated transport, Golgi to ER; phagocytosis, engulfment; intracellular protein transport. 7 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 2B12-2B13   Limits computationally determined from genome sequence between P{EP}brEP1515 and P{EP}EP1444&P{EP}CG14818EP1190
Experimentally Determined Cytological Location
Cytogenetic map Notes References 2B7-2B10 (determined by in situ hybridisation) 2B (determined by in situ hybridisation)   (Peter et al., 2002) 2B-2B (determined by in situ hybridisation)   (Schaefer et al., 1999.12.2) 2A1-2B18   (Mullins, 1998.12.1) 2B-2B (determined by in situ hybridisation)   (Schaefer et al., 1999.6.15) 2B7-2B1 (determined by in situ hybridisation)   (Schaefer et al., 1999.3.29) 2B10-2B14 (determined by in situ hybridisation)   (Louis et al., 1997) 2B-2B (determined by in situ hybridisation)   (EDGP Project Members, 1994-)
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\δCOP for information on other features
Comments on Gene Model
	EST data support existence of multiple transcripts due to variable use of 5' exons
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) deltaCOP-RA FBtr0070371  NM_143755   2170   532
Additional Transcript Data & Comments
Reported size (kB)	1.672 (sequence analysis) (Mullins et al., 1999)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein deltaCOP-PA   FBpp0070355   57.9   532   6.09     NP_652012   AAF45673
Additional Polypeptide Data & Comments
Reported size (kD)	498 (aa) (Mullins et al., 1999)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0028969
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Clathrin adaptor, mu subunit, C-terminal (IPR008968) Longin-like (IPR011012)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA140670   AA390347   AA698176   AA941216   AA950785   AE003422 AAF45673   AF110234 AAF14250   AI062737   AI062807   AI063499   AI108232   AI258588   AI387564   AI387701   AI389209   AI456373   AI516625   AI517355   AI518580   AI532700   AI532793   AI542803   AJ300024   AJ300025   AL024456 CAA19661   AX777392   AY051528 AAK92952   BF488909   BF492458   BF499005   BF499012   BF503509   BF503515   BF503806   BF504531   BG634586   BG634618   BG636902   BG640100   BI142121   BI163467   BI167311   BI169242   BI213652   BI232451   BI236798   BI351872   BI371247   BI374331   BI374625   BI481676   BI486769   BI567247   BI571945   BI572332   BI573423   BI573424   BI582487   BI593588   BI608390   BI610897   BI611318   BI614268   BI632113   BI632306   BI632681   BI633475   BI635352   BI636557   BI637665   BI638637   BI639401   BI640159   BI640745   BP553397   BP553398   BP554417   BP554418   CK132365   CK604614   CK604615   CK604931   CK604932   CK605067   CK605068   CK661516   CK661543   CO153111   CO154508   CO156371   CO156383   CO178615   CO277992   CO282023   CO288925   CO295770   CO337863   CO338589   DN154390   EC053368   EC061965   EC073497   EC086950   EC086994   EC088168   EC198612   EC221705   EC236897   EC244132   EC250659   EC260976   EC261457   EC263514   EC263982   EC264504   EC266667   EC267058   RH09062   UT01549   UT01654   Z32226
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q7K7G0 Q9U8A9 Q9W555
Maps to	DS02478 DS06463 (Mullins et al., 1999)
Does NOT map to
Identified with	CK00375 (Mullins et al., 1999) GH18123 (BDGP Project Members, 2000-, Abrams and Andrew, 2005, Grieder et al., 2005) LD30910 (Benos et al., 2001)
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 • 251
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-adult stage   (Mullins et al., 1999)
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) AI387564
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0028969 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0028969 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0028969
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | recessive δCOPG0051 δCOPG0450 lethal | embryonic stage δCOPG0051 δCOPG0450 semi-lethal | recessive δCOPG0301 semi-lethal | male δCOPG0301 semi-lethal | female δCOPG0301 Phenotype manifest in Allele
Classical Alleles ( 4 )
For All Classical Alleles Show
Allele of δCOP Class Mutagen Stocks Known lesion δCOPG0051 P-element activity 1 -- δCOPG0301 P-element activity 1 -- δCOPG0450 P-element activity 1 -- δCOPKG07426 0 --
Alleles Carried on Transgenic Constructs ( 3 )
For All Alleles Carried on Transgenic Constructs Show
Allele of δCOP Class Mutagen Stocks Known lesion δCOPGD8451 in vitro construct | RNAi in vitro construct | regulatory fusion 2 Yes δCOPdsRNA.cLa in vitro construct | RNAi 0 Yes δCOPdsRNA.cRa in vitro construct | RNAi 0 Yes
Aneuploid Aberrations
Useful deficiency	T(1;3)143-3
Useful duplication	Dp(1;Y)2E
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data miscellaneous insertions P{SUPor-P}deltaCOPKG07426 NA insertion of enhancer trap P{lacW}δCOPG0051 No P{lacW}δCOPG0301 No P{lacW}δCOPG0450 No
Related Comments
	Please look at the allele reports for the complete phenotype data S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells. (Stroschein-Stevenson et al., 2006)
Gene Ontology: Function, Process & Cellular Component ( 6 )
Molecular Function
CV term Evidence References
protein binding inferred from electronic annotation with InterPro:IPR008968 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
intracellular protein transport inferred from electronic annotation with InterPro:IPR008968 (FlyBase Curators et al., 2004-)
phagocytosis, engulfment inferred from mutant phenotype (Stroschein-Stevenson et al., 2006)
retrograde vesicle-mediated transport, Golgi to ER inferred from sequence or structural similarity (EDGP Project Members, 1994-) inferred from sequence or structural similarity with UniProtKB:P53619 (FlyBase, 1992-)
Cellular Component
CV term Evidence References
COPI vesicle coat inferred from sequence or structural similarity (EDGP Project Members, 1994-) non-traceable author statement (Mullins, 1998.12.1) inferred from sequence or structural similarity with UniProtKB:P53619 (FlyBase, 1992-)
clathrin adaptor complex inferred from electronic annotation with InterPro:IPR008968 (FlyBase Curators et al., 2004-)
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 δCOP allele Gene References
External Data
Linkouts	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 69540
Orthologs
Genome-wide drosophilid orthologs	Dana\GF21077 Dere\GG12678 Dgri\GH17851 Dmoj\GI10991 Dper\GL20219 Dpse\GA13266 Dsec\GM18950 Dsim\GD24626 Dvir\GJ19103 Dwil\GK20068 Dyak\GE16508
Curated drosophilid orthologs	Dpse\GA13266
Linkouts	InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000018445 Anopheles gambiae (Ensembl) ENSBTAP00000008799 Bos taurus (Ensembl) ENSCAFP00000018553 Canis familiaris (Ensembl) ENSCINP00000018065 Ciona intestinalis (Ensembl) NEWSINFRUP00000128972 Takifugu rubripes (Ensembl) ENSGALP00000012007 Gallus gallus (Ensembl) ENSP00000352385 Homo sapiens (Ensembl) ENSMMUP00000003424 Macaca mulatta (Ensembl) ENSMODP00000016800 Monodelphis domestica (Ensembl) ENSPTRP00000041985 Pan troglodytes (Ensembl) ENSRNOP00000018598 Rattus norvegicus (Ensembl) GSTENP00026830001 Tetraodon nigroviridis (Ensembl) ENSXETP00000046606 Xenopus tropicalis (Ensembl) Q9M640 Oryza sativa (Gramene) AT5G05010.2 Arabidopsis thaliana (Arabidopsis) WBGene00035519 Caenorhabditis briggsae (Wormbase) WBGene00015734 Caenorhabditis elegans (Wormbase) ZDB-CDNA-040625-2 Danio rerio (Zfin) ZDB-CDNA-040718-547 Danio rerio (Zfin) ZDB-GENE-040121-7 Danio rerio (Zfin) DDB0189960 Dictyostelium discoideum (Dictybase) MGI:2387591 Mus musculus (Informatics) YFR051C Saccharomyces cerevisiae (Yeastgenome) SPCC285.08 Schizosaccharomyces pombe (Sanger)
Functional Complementation between Species