FB2021_02, released April 13, 2021

Gene: Dmel\Cog4

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General Information
Symbol
Dmel\Cog4
Species
D. melanogaster
Name
Component of oligomeric golgi complex 4
Annotation Symbol
CG7456
Feature Type
protein_coding_gene
FlyBase ID
FBgn0032258
Gene Model Status
Current
Stock Availability
6 publicly available
Gene Summary
Required for normal Golgi function. (UniProt, Q95TN4)
Contribute a Gene Snapshot for this gene.
All Summaries
Key Links
Genomic Location
Cytogenetic map
31F1-31F1
Sequence location
2L:10,485,538..10,488,622 [-]
Recombination map
2-43
RefSeq locus
NT_033779 REGION:10485538..10488622
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (5 terms)
Molecular Function (0 terms)
There is no information supporting a Molecular Function term for this gene. (Based on a review of available data on: 2015-09-15 )
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (4 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
involved_in Golgi organization
inferred from biological aspect of ancestor with PANTHER:PTN000613642
(assigned by GO_Central )
(Gaudet et al., 2011)
inferred from sequence or structural similarity with UniProtKB:Q9H9E3
(FlyBase Curators, 2008--)
involved_in Golgi vesicle prefusion complex stabilization
inferred from biological aspect of ancestor with PANTHER:PTN000613642
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in intra-Golgi vesicle-mediated transport
inferred from sequence or structural similarity with SGD:S000006309
(FlyBase Curators, 2008--)
involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum
inferred from biological aspect of ancestor with PANTHER:PTN000613642
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
part_of Golgi transport complex
inferred from direct assay
(Gillingham et al., 2014)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
part_of Golgi transport complex
inferred from biological aspect of ancestor with PANTHER:PTN000613642
(assigned by GO_Central )
(Gaudet et al., 2011)
inferred from sequence or structural similarity with HGNC:18620
(FlyBase Curators, 2008--)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the COG4 family. (Q95TN4)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
CONSERVED OLIGOMERIC GOLGI COMPLEX -
The conserved oligomeric Golgi (COG) complex is a multi-subunit tethering complex of the CATCHR family that functions as a vesicular tether during retrograde intra-Golgi trafficking. (Adapted from PMID:23839779).
Protein Function (UniProtKB)
Required for normal Golgi function.
(UniProt, Q95TN4)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Cog4 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Gene model reviewed during 5.48

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Cog4-RA
FBtr0080038
NM_135569
2666
776
Additional Transcript Data and 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
Cog4-PA
FBpp0079628
87.7
776
5.64
NP_609413
AAF52963
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Component of the conserved oligomeric Golgi complex which is composed of eight different subunits and is required for normal Golgi morphology and localization.

(UniProt, Q95TN4)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Cog4 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
• membrane
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
part_of Golgi transport complex
inferred from direct assay
(Gillingham et al., 2014)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Cog4 in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 2 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Cog4
Transgenic constructs containing regulatory region of Cog4
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation ( 1 )
Gene disrupted in
Df(2L)Exel7048
(Ryder, 2004.4.26)
Inferred from location ( 0 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Phenotype manifest in
Allele
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\COG4
14 of 15
Yes
Yes
1  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Cog4
13 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Cog4
13 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
Xtro\cog4
9 of 12
Yes
Yes
Danio rerio (Zebrafish) (1)
Drer\cog4
14 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\cogc-4
12 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\AT4G01395
8 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\COG4
12 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\cog4
10 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091902V0 )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00001818
Drosophila simulans
Dsim\GD22250
Drosophila sechellia
Dsec\GM11647
Drosophila erecta
Dere\GG10382
Drosophila yakuba
Dyak\GE13582
Drosophila ananassae
Dana\GF14092
Drosophila pseudoobscura pseudoobscura
Dpse\GA20365
Drosophila persimilis
Dper\GL19016
Drosophila willistoni
Dwil\GK15251
Drosophila virilis
Dvir\GJ14587
Drosophila mojavensis
Dmoj\GI18160
Drosophila grimshawi
Dgri\GH13296
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091501QE )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17011451
Glossina morsitans
Tsetse fly
Gmor\GMOY001420
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_07035
Mayetiola destructor
Hessian fly
Mdes\Mdes007671
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL005794
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL010135
Anopheles darlingi
American malaria mosquito
Adar\ADAC010232
Anopheles gambiae
Malaria mosquito
Agam\AGAP008875
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ004668
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W01IO )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA006072
Danaus plexippus
Monarch butterfly
Dple\DPOGS201898-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL014747
Apis florea
Little honeybee
Aflo\2863733316
Apis mellifera
Western honey bee
Amel\LOC411125
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP18940
Bombus terrestris
Buff-tailed bumblebee
Bter\15216578
Linepithema humile
Argentine ant
Lhum\LH18562
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:0026ab
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG003823
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_03215
Tribolium castaneum
Red flour beetle
Tcas\TC013064
Pediculus humanus
Human body louse
Phum\PHUM529330
Rhodnius prolixus
Kissing bug
Rpro\RPRC005913
Cimex lectularius
Bed bug
Clec\CLEC012984
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI009975
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_04161
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X02VY )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR008752
Ixodes scapularis
Black-legged tick
Isca\ISCW011879
Stegodyphus mimosarum
African social velvet spider
Smim\KFM72021.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur23g01010
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_220094
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G02P2 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Cog4
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Cog4_1
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000021108
Gallus gallus
Domestic chicken
Ggal\COG4
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (1)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
CG43322
2 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 2 )
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    COG4; component of oligomeric golgi complex 4
    14 of 15
    606976
     
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    esyN Network Diagram
    Show neighbor-neighbor interactions:
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    Interactions Browser
    View in Interactions Browser
    Please see the Physical Interaction reports below for full details
    protein-protein
    Physical Interaction
    Assay
    References
    Cog4 - CG12241
    experimental knowledge based
    (Guruharsha et al., 2011)
    Cog4 - CG3511
    experimental knowledge based
    (Guruharsha et al., 2011)
    Cog4 - Rsph3
    two hybrid
    (Hu et al., 2017.6.13)
    Summary of Genetic Interactions
    esyN Network Diagram
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    External Data
    Subunit Structure (UniProtKB)
    Component of the conserved oligomeric Golgi complex which is composed of eight different subunits and is required for normal Golgi morphology and localization.
    (UniProt, Q95TN4 )
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2L
    Recombination map
    2-43
    Cytogenetic map
    31F1-31F1
    Sequence location
    2L:10,485,538..10,488,622 [-]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    31F1-31F1
    Limits computationally determined from genome sequence between P{lacW}KdelRk00311 and P{lacW}l(2)k09116k09116&P{lacW}Fatpk10307
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location

    2-43

    (FlyBase, 2016)

    2-35.5

    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (6)
    Genomic Clones (20)
    cDNA Clones (122)
     

    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
    Other clones
    Drosophila Genomics Resource Center cDNA clones

    For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

    cDNA Clones, End Sequenced (ESTs)
    BDGP DGC clones
    Other clones
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    Antibody Information
    Laboratory Generated Antibodies
     
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of

    Source for identity of: Cog4 CG7456

    (Gillingham et al., 2014)
    Source for database merge of
    Additional comments
    Other Comments
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 31 )
    Sequence Crossreferences
    NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
    GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
    GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
    RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
    UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
    Other crossreferences
    BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
    Flygut - An atlas of the Drosophila adult midgut
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
    InterPro - A database of protein families, domains and functional sites
    KEGG Genes - Molecular building blocks of life in the genomic space.
    modMine - A data warehouse for the modENCODE project
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DPiM - Drosophila Protein interaction map
    DroID - A comprehensive database of gene and protein interactions.
    DRSC - Results frm RNAi screens
    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
    FlyMine - An integrated database for Drosophila genomics
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
    Synonyms and Secondary IDs (3)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (31)