FB2020_06, released Dec 22, 2020

Gene: Dmel\COX6AL

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General Information
Symbol
Dmel\COX6AL
Species
D. melanogaster
Name
Cytochrome c oxidase subunit 6A-like
Annotation Symbol
CG30093
Feature Type
protein_coding_gene
FlyBase ID
FBgn0050093
Gene Model Status
Current
Stock Availability
6 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
52D3-52D4
Sequence location
2R:15,944,028..15,944,567 [+]
Recombination map

2-76

RefSeq locus
NT_033778 REGION:15944028..15944567
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 (6 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
contributes_to cytochrome-c oxidase activity
inferred from biological aspect of ancestor with PANTHER:PTN000161400
(assigned by GO_Central )
(Gaudet et al., 2011)
enables enzyme regulator activity
inferred from biological aspect of ancestor with PANTHER:PTN000161400
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in aerobic respiration
inferred from sequence or structural similarity with SGD:S000003159
(FlyBase Curators, 2008--)
involved_in mitochondrial electron transport, cytochrome c to oxygen
inferred from biological aspect of ancestor with PANTHER:PTN000161400
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
part_of mitochondrial respiratory chain complex IV
inferred from biological aspect of ancestor with PANTHER:PTN000161401
(assigned by GO_Central )
(Gaudet et al., 2011)
located_in mitochondrion
inferred from sequence or structural similarity with SGD:S000003159
(FlyBase Curators, 2008--)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
MITOCHONDRIAL COMPLEX IV - CYTOCHROME C OXIDASE SUBUNITS -
Cytochrome c oxidase (Mitochondrial complex IV) is the terminal complex of the electron transfer chain. It catalyzes the transfer of electrons from ferrocytochrome c to molecular oxygen, converting the latter to water. It has been suggested that it is a major target in the regulation of oxidative phosphorylation. (Adapted from PMID:17091399)
CYTOCHROME-C OXIDASES -
Cytochrome-c oxidases are oxidoreductases that catalyze the transfer of electrons from ferrocytochrome c to molecular oxygen, reducing it to water which is accompanied by the extrusion of four protons from the intramitochondrial compartment. (Adapted from PMID:7703349).
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\COX6AL 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 5.50

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
COX6AL-RA
FBtr0087199
NM_166124
540
94
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
COX6AL-PA
FBpp0086341
10.8
94
6.79
NP_725504
AAM70935
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
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\COX6AL 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
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
day 5 of adulthood & male -- day 7 of adulthood & male
spermatozoon
(Wasbrough et al., 2010)
adult stage
adult head
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\COX6AL 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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 0 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of COX6AL
Transgenic constructs containing regulatory region of COX6AL
Deletions and Duplications ( 1 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4pnr-MD237
Phenotype manifest in
Allele
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (3)
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\COX6A1
11 of 15
Yes
No
1  
Hsap\COX6A2
10 of 15
No
No
1  
Hsap\COX6A1P2
2 of 15
No
No
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (2)
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\Cox6a1
10 of 15
Yes
No
Mmus\Cox6a2
10 of 15
Yes
No
Rattus norvegicus (Norway rat) (2)
Rnor\Cox6a1
9 of 13
Yes
No
Rnor\Cox6a2
9 of 13
Yes
No
Xenopus tropicalis (Western clawed frog) (2)
Xtro\cox6a2
9 of 12
Yes
No
Xtro\cox6a1
8 of 12
No
No
Danio rerio (Zebrafish) (2)
Drer\cox6a2
11 of 15
Yes
No
Drer\cox6a1
7 of 15
No
No
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\cox-6A
11 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\AT4G37830
4 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\COX13
11 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\cox13
9 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190JIV )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00005764
Drosophila simulans
Dsim\GD11145
Drosophila sechellia
Dsec\GM21645
Drosophila erecta
Dere\GG20553
Drosophila yakuba
Dyak\GE11738
Drosophila ananassae
Dana\GF11548
Drosophila willistoni
Dwil\GK22192
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W07YZ )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\Bmo.7499
Bombyx mori
Silkmoth
Bmor\BGIBMGA005511
Danaus plexippus
Monarch butterfly
Dple\DPOGS207824-PA
Danaus plexippus
Monarch butterfly
Dple\DPOGS204469-PA
Apis florea
Little honeybee
Aflo\2178234996
Apis florea
Little honeybee
Aflo\3460332708
Apis mellifera
Western honey bee
Amel\Cox6a1
Apis mellifera
Western honey bee
Amel\GB55749
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP13895
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP10057
Bombus terrestris
Buff-tailed bumblebee
Bter\15210319
Bombus terrestris
Buff-tailed bumblebee
Bter\15215747
Linepithema humile
Argentine ant
Lhum\LH23385
Linepithema humile
Argentine ant
Lhum\LH12437
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:001698
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:002a5b
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG006849
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG002503
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_05599
Tribolium castaneum
Red flour beetle
Tcas\TC006519
Pediculus humanus
Human body louse
Phum\PHUM274850
Pediculus humanus
Human body louse
Phum\PHUM386880
Rhodnius prolixus
Kissing bug
Rpro\RPRC012256
Cimex lectularius
Bed bug
Clec\CLEC006361
Cimex lectularius
Bed bug
Clec\CLEC001863
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI23643
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_14130
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X07UW )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Ixodes scapularis
Black-legged tick
Isca\ISCW019235
Stegodyphus mimosarum
African social velvet spider
Smim\KFM57284.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur27g01170
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_302522
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0C5F )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Cox6a1
Ciona intestinalis
Vase tunicate
Cint\LOC100181796
Gallus gallus
Domestic chicken
Ggal\COX6A1
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (2)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
levy
9 of 10
CG14077
6 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 ( 1 )
    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?
    COX6A1; cytochrome c oxidase subunit 6A1
    11 of 15
    602072
     
    COX6A2; cytochrome c oxidase subunit 6A2
    10 of 15
    602009
       
      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
      Interactions Browser
      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
      Linkouts
      DroID - A comprehensive database of gene and protein interactions.
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      Pathways
      Signaling Pathways (FlyBase)
      Metabolic Pathways
      FlyCyc Pathways - Pathways from a BioCyc PGDB for Dmel
      KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
      External Data
      Linkouts
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      2R
      Recombination map

      2-76

      Cytogenetic map
      52D3-52D4
      Sequence location
      2R:15,944,028..15,944,567 [+]
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      52D3-52D4
      Limits computationally determined from genome sequence between P{lacW}l(2)k02205k02205&P{PZ}sli05248 and P{lacW}ATPCLk09217
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      Experimentally Determined Recombination Data
      Location

      2-76

      (FlyBase, 2016)

      2-80.0

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (6)
      Genomic Clones (14)
       

      Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

      cDNA Clones (6)
       

      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: COX6AL CG30093

          (Porcelli and Marygold, 2014.9.16)
          Source for database merge of

          Source for merge of: CG30093 NEST:bs02a12

          (FlyBase, 1996-)
          Additional comments

          Source for merge of CG30093 NEST:bs02a12 was sequence comparison ( date:030903 ).

          (FlyBase, 1996-)
          Other Comments

          New annotation (CG30093) in release 3 of the genome annotation.

          (FlyBase Genome Annotators, 2002-2003)
          Origin and Etymology
          Discoverer
          Etymology
          Identification
          External Crossreferences and Linkouts ( 24 )
          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/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
          Other crossreferences
          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.
          Flygut - An atlas of the Drosophila adult midgut
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          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
          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
          FlyCyc Pathways - Pathways 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.
          KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
          Synonyms and Secondary IDs (8)
          Datasets (0)
          Study focus (0)
          Experimental Role
          Project
          Project Type
          Title
          References (30)