Gene Dmel\αCop

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General Information

Symbol

Dmel\αCop

Species

D. melanogaster

Name

α-coatomer protein

Annotation symbol

CG7961

Feature type

protein_coding_gene

FlyBase ID

FBgn0025725

Created / Updated

2003-12-01/2003-12-01

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

62A9-62A9

Sequence location

3L:1,641,058..1,645,213 [-]

Map ( GBrowse )

Summary Information

Automatically generated summary

See sections below for more information

The gene α-coatomer protein is referred to in FlyBase by the symbol αCop (CG7961, FBgn0025725). It has the cytological map location 62A9. Its sequence location is 3L:1641058..1645213. Its molecular function is described as: protein binding; structural molecule activity. It is involved in the biological processes: retrograde vesicle-mediated transport, Golgi to ER; vesicle-mediated transport; phagocytosis, engulfment; intracellular protein transport. 2 alleles are reported. No phenotypic data is available. It has 2 annotated transcripts and 2 annotated polypeptides.

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

62A9-62A9

Limits computationally determined from genome sequence between P{EP}rho^EP3704&P{PZ}l(3)06226⁰⁶²²⁶ and P{PZ}dlt⁰⁴²⁷⁶

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

62A10-62B5

(determined by in situ hybridisation)

(Merdes, 1998.12.20)

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\αCop for information on other features

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

alphaCop-RB

FBtr0072811

NM_167908

3992

1234

αCop-RA

FBtr0072812

NM_058047

3979

1234

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kD)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

alphaCop-PA

FBpp0072694

139.3

1234

7.68

NP_477395

AAF47534

alphaCop-PB

FBpp0072693

139.3

1234

7.68

NP_728648

AAF47535

Additional Polypeptide Data & Comments

Reported size (kD)

Comments

External Data

Linkouts

PANTHER - Protein classification by function, families, and pathways

•

FBgn0025725

Crossreferences

InterPro domains - A database of protein families, domains, and functional sites

•

WD40/YVTN repeat-like (IPR015943)

WD40 repeat (IPR001680)

Coatomer, WD associated region (IPR006692)

Coatomer, alpha subunit, C-terminal (IPR010714)

WD40 repeat-like (IPR011046)

Coatomer, alpha subunit (IPR016391)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Maps to

DS04808

(FlyBase, 1992-)

Does NOT map to

Identified with

LD46584

(BDGP Project Members, 2000-, Grieder et al., 2005)

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

•

2012

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)

Untitled Document detailed view

AI514945
AI064430
AI108273

External Data & Images

Linkouts

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

•

FBgn0025725

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0025725

GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies

•

FBgn0025725

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable

αCop^EY09064

Sterility

Allele

fertile

αCop^EY09064

Phenotype manifest in

Allele

Classical Alleles ( 1 )

For All Classical Alleles Show

Allele of αCop	Class	Mutagen	Stocks	Known lesion
αCop^EY09064		P-element activity	1	--

Alleles Carried on Transgenic Constructs ( 1 )

For All Alleles Carried on Transgenic Constructs Show

Allele of αCop	Class	Mutagen	Stocks	Known lesion
αCop^GD12332		in vitro construct \| RNAi in vitro construct \| regulatory fusion	2	Yes

Aneuploid Aberrations

Useful deficiency

Df(3L)Mg27

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

Insertions

Type of insertions

Name

Expression data

insertion of mobile activating element

P{EPgy2}αCop^EY09064

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)

dsRNA made from templates generated with primers directed against αCop that is transfected into S2 treated with Listeria monocytogenes reveals αCop to be involved in Listeria monocytogenes entry and vacuolar escape.

(Cheng et al., 2005)

Gene Ontology: Function, Process & Cellular Component ( 7 )

Molecular Function

CV term

Evidence

References

protein binding

inferred from electronic annotation with InterPro:IPR006692, InterPro:IPR010714

(FlyBase Curators et al., 2004-)

structural molecule activity

inferred from electronic annotation with InterPro:IPR006692, InterPro:IPR010714

(FlyBase Curators et al., 2004-)

Biological Process

CV term

Evidence

References

intracellular protein transport

inferred from electronic annotation with InterPro:IPR006692, InterPro:IPR010714

(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 with SGD_LOCUS:COP1; SGD:S0002304

(FlyBase, 1992-)

non-traceable author statement

(Merdes, 1998.9.27)

vesicle-mediated transport

non-traceable author statement

(Sisson et al., 2000)

Cellular Component

CV term

Evidence

References

COPI vesicle coat

inferred from sequence or structural similarity with SGD_LOCUS:COP1; SGD:S0002304

(FlyBase, 1992-)

non-traceable author statement

(Merdes, 1998.9.27)

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

αCop allele

Gene

References

External Data

Linkouts

BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions

•

63733

Orthologs

Genome-wide drosophilid orthologs

Dana\GF24978

Dere\GG14579

Dgri\GH15519

Dmoj\GI16798

Dper\GL20730

Dpse\GA20724

Dsec\GM14193

Dsim\GD13458

Dvir\GJ12542

Dwil\GK23658

Dyak\GE20939

Curated drosophilid orthologs

Dpse\GA20724

Linkouts

InParanoid orthologs - Eukaryotic orthologs

•

ENSANGP00000002872
Anopheles gambiae (Ensembl)
ENSBTAP00000005672
Bos taurus (Ensembl)
ENSCAFP00000018474
Canis familiaris (Ensembl)
ENSCINP00000018763
Ciona intestinalis (Ensembl)
NEWSINFRUP00000180273
Takifugu rubripes (Ensembl)
ENSGALP00000014893
Gallus gallus (Ensembl)
ENSP00000241704
Homo sapiens (Ensembl)
ENSMMUP00000028777
Macaca mulatta (Ensembl)
ENSMODP00000011933
Monodelphis domestica (Ensembl)
ENSPTRP00000002599
Pan troglodytes (Ensembl)
ENSRNOP00000008518
Rattus norvegicus (Ensembl)
GSTENP00007968001
Tetraodon nigroviridis (Ensembl)
ENSXETP00000012847
Xenopus tropicalis (Ensembl)
Q6RYF4
Oryza sativa (Gramene)
AT1G62020.1
Arabidopsis thaliana (Arabidopsis)
WBGene00026941
Caenorhabditis briggsae (Wormbase)
WBGene00022119
Caenorhabditis elegans (Wormbase)
ZDB-GENE-020905-2
Danio rerio (Zfin)
DDB0189693
Dictyostelium discoideum (Dictybase)
MGI:1334462
Mus musculus (Informatics)
YDL145C
Saccharomyces cerevisiae (Yeastgenome)
SPBPJ4664.04
Schizosaccharomyces pombe (Sanger)

Functional Complementation between Species

Inter-Species Misexpression Data

Produces phenotype in

Produces NO phenotype in

Stocks & Reagents

Stocks Listed in FlyBase ( 3 )

VDRC

v35305

w¹¹¹⁸; P{GD12332}v35305/TM3

v35306

w¹¹¹⁸; P{GD12332}v35306/TM3

Bloomington

17530

y¹ w^67c23; P{EPgy2}αCop^EY09064

Genomic Clones ( 2 )

cDNA Clones ( 86 )

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

LD46584

Other clones

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones