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Gene Dmel\mt:CoI

General Information
Symbol	Dmel\mt:CoI	Species	D. melanogaster
Name	mitochondrial Cytochrome c oxidase subunit I	Annotation symbol	CG34067
Feature type	protein_coding_gene	FlyBase ID	FBgn0013674
Gene Model Status	Current	Stock availability	None publicly available
Also Known As	COI, COX, CO I, coxI, cox1
Genomic Location
Chromosome (arm)	dmel_mitochondrion_genome	Recombination map
Cytogenetic map		Sequence location	dmel_mitochondrion_genome:1,474..3,009 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents Beta	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene mitochondrial Cytochrome c oxidase subunit I is referred to in FlyBase by the symbol Dmel\mt:CoI (CG34067, FBgn0013674). It is a protein_coding_gene from Drosophila melanogaster. It is reported to have molecular function: cytochrome-c oxidase activity. It is reported to be involved in the biological process: sleep; mitochondrial electron transport, cytochrome c to oxygen. 5 alleles are reported. The phenotypes of these alleles are annotated with: rhabdomere; eye; mechanosensory chaeta; flight muscle; photoreceptor cell; ommatidium. It has one annotated transcript and one annotated polypeptide. Protein features are: Cytochrome c oxidase, subunit I; Cytochrome c oxidase, subunit I domain; Cytochrome c oxidase, subunit I, copper-binding site. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of low expression. Peak expression observed at stages throughout embryogenesis, during early pupal stages. Summary of FlyAtlas Anatomical Expression Data: No FlyAtlas data available because no Affy2 ProbeSet aligns to an exon of mt:CoI. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of mt:CoI. Gene sequence location is dmel_mitochondrion_genome:1474..3009.
User Contributed Data
	Beta version, feedback welcome
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\mt:CoI for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) mt:CoI-RA FBtr0100861     1536   511
Additional Transcript Data & 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 protein mt:CoI-PA   FBpp0100176   56.4   511   6.60       NP_008278
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Cytochrome c oxidase, subunit I (IPR000883) Cytochrome c oxidase, subunit I, copper-binding site (IPR023615) Cytochrome c oxidase, subunit I domain (IPR023616)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA433224   AF200828 AAF77227   AF200829 AAF77245   AJ400907 CAB91052   AY383542 AAQ92343   BI582086   BP541445   BP542208   BP543272   BP548697   BP548790   BP549021   BP549022   BP549127   BP550266   BP550712   BP550798   BP551803   BP552098   BP554504   BP556219   BP556288   BP556878   BP557347   BP557396   BP560108   CA803962   J01404 AAB59239   M18022 AAA65480   M57910 AAB02282   U37541 AAC47812   U51619 AAB68481
UniProtKB/Swiss-Prot	P00399
UniProtKB/TrEMBL
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
modENCODE Anatomy RNA-Seq
modENCODE Development RNA-Seq
modENCODE Temporal Expression Data (Graveley et al., 2011)
modENCODE Cell Lines RNA-Seq
modENCODE Treatments RNA-Seq
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (Graveley et al., 2011) mE1_20_mRNA_expression_cluster_06
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0013674
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | embryonic stage, with Scer\GAL4αTub84B.PL mt:CoIXhoI.Scer\UAS Sterility Allele female semi-sterile mt:CoIR301S male sterile mt:CoIR301L mt:CoIR301S sterile, with Scer\GAL4nos.UTR.T:Hsim\VP16 mt:CoIXhoI.Scer\UAS Other Phenotypes Allele locomotor behavior defective mt:CoIR301S neuroanatomy defective mt:CoIR301S short lived mt:CoIR301S Phenotype manifest in Allele eye, with Scer\GAL4ey.PB mt:CoIXhoI.Scer\UAS flight muscle mt:CoIR301S mechanosensory chaeta mt:CoIR301S ommatidium mt:CoIR301S photoreceptor cell mt:CoIR301S rhabdomere mt:CoIR301S
Classical Alleles ( 3 )
For All Classical Alleles Show
Allele of mt:CoI Class Mutagen Stocks Known lesion mt:CoIA302T spontaneous 0 Yes mt:CoIR301L spontaneous 0 Yes mt:CoIR301S spontaneous 0 Yes
Alleles Carried on Transgenic Constructs ( 2 )
For All Alleles Carried on Transgenic Constructs Show
Allele of mt:CoI Class Mutagen Stocks Known lesion mt:CoIKK115361 in vitro construct - RNAi in vitro construct - regulatory fusion 0 Yes mt:CoIXhoI.Scer\UAS in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{KK115361} NA P{UAS-mito:CoI.XhoI} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 11 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 11 terms )
Molecular Function
CV term Evidence References
cytochrome-c oxidase activity inferred from electronic annotation with InterPro:IPR000883, InterPro:IPR023615, InterPro:IPR023616 (FlyBase Curators et al., 2004-) non-traceable author statement (FlyBase, 1992-, Swiss-Prot Project Members, 1986.7.21) electron carrier activity inferred from electronic annotation with InterPro:IPR000883 (FlyBase Curators et al., 2004-) heme binding inferred from electronic annotation with InterPro:IPR000883 (FlyBase Curators et al., 2004-) iron ion binding inferred from electronic annotation with InterPro:IPR000883 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
aerobic respiration inferred from electronic annotation with InterPro:IPR000883 (FlyBase Curators et al., 2004-) mitochondrial electron transport, cytochrome c to oxygen non-traceable author statement (Swiss-Prot Project Members, 1986.7.21) sleep traceable author statement (Cirelli, 2003)
Cellular Component
CV term Evidence References
integral to membrane inferred from electronic annotation with InterPro:IPR000883 (FlyBase Curators et al., 2004-) mitochondrial inner membrane non-traceable author statement (Swiss-Prot Project Members, 1986.7.21) mitochondrial respiratory chain complex IV non-traceable author statement (FlyBase, 1992-) mitochondrion non-traceable author statement (FlyBase, 1992-)
Sequence Ontology: Class of Gene
	mt_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions mt:CoI allele Gene References
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0013674 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 192469
Orthologs
OrthoDB Orthologs (16) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search No orthologs identified Dipteran inclusive ortholog search No orthologs identified Insect inclusive ortholog search EOG6X0KP8 Arthropod inclusive ortholog search EOG6CRJFW Metazoa inclusive ortholog search EOG6NSG4T
Orthologs in Drosophila Species (None identified)
No orthologies identified
Orthologs in non-Drosophila Dipterans (None identified)
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (EOG6X0KP8)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Nasonia vitripennis Parasitic wasp  Nvit\Nasvi2EG034576   Atta cephalotes Leafcutter ant  Acep\ACEP15417   Atta cephalotes Leafcutter ant  Acep\ACEP25309   Atta cephalotes Leafcutter ant  Acep\ACEP15024   Camponotus floridanus Florida carpenter ant  Cflo\CFLO11513   Camponotus floridanus Florida carpenter ant  Cflo\CFLO12133   Harpegnathos saltator Jerdons jumping ant  Hsal\HSAL12208   Solenopsis invicta Red fire ant  Sinv\SINV17918   Solenopsis invicta Red fire ant  Sinv\SINV26053
Orthologs in non-Insect Arthropods (EOG6CRJFW)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Ixodes scapularis Deer tick  Isca\ISCW016022
Orthologs in non-Arthropod Metazoa (EOG6NSG4T)
Organism Common Name Gene Multiple Dmel Genes in this Orthologous Group Caenorhabditis elegans Nematode  Cele\MTCE.26   Danio rerio Zebrafish  Drer\ENSDARG00000063905   Gallus gallus Domestic chicken  Ggal\ENSGALG00000018373   Mus musculus House mouse  Mmus\COX1   Rattus norvegicus Norway rat  Rnor\Mt-co1   Homo sapiens Human  Hsap\COX1
Human Orthologs (1)
Gene OMIM HGNC Hsap\COX1
AAA Orthologs (0) based on analysis using Dmel annotation version 4.3
No orthologs identified
Stocks & Reagents
Stocks Listed in FlyBase ( 0 )
Genomic Clones ( 0 )
cDNA Clones ( 21 )
	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
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones	ESG0111c.B21_A08 FGC001G01 FGC010C09 FGC019E12 FGM001C09 FGM001G10 FGM003B09 FGM003G10 FGM206B11 FGM208F10 FGM209B09 FGM214H05 FGM216G07 FGM230C02 FGM302A10 FGM302E10 FGM306A08 FGM308G08 FGM309A12 FGM324G01 RH19985
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0013674 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 192469
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of	Source for merge of: mt:CoI anon-EST:fe1F8 (FlyBase, 1996-)
Additional comments
Other Comments
	New annotation (CG34067) in release 4.3 of the genome annotation. (FlyBase Genome Annotators, 2005) Quantifying rates of protein sequence divergence within and between species reveals that the Drosophila genome harbors a substantial proportion of genes with a very high divergence rate. (Schmid and Tautz, 1997) Phylogeny of the hydei subgroup is inferred from 1,515 base pairs of mitochondrial DNA sequence of the cytochrome oxidase subunits I, II and III. (Spicer and Pitnick, 1996) Steady state levels of mt:CoI RNA decrease as adult Drosophila age, and this change correlates with the shape of the life span curve. (Calleja et al., 1993) Maternal mRNA localises to the pole region of the embryo. (Ding and Lipshitz, 1993) mt:CoI has been cloned and sequenced, and compared to Dsim\mt:CoI, Dsec\mt:CoI and Dmau\mt:CoI. (Satta and Takahata, 1990) During oogenesis RNA from mt:srRNA, mt:lrRNA, mt:ND2, mt:CoI, mt:CoII, mt:CoIII, mt:ND4, mt:ND5 and mt:Cyt-b shows fluctuations in RNA density after stage 9 in follicle and nurse cells.There is a correlation between the mtRNA level and the cell volume and/or the nuclear DNA content suggesting a global extra-mitochondrial, transcriptional control mechanism. (Tourmente et al., 1990)
External Crossreferences & Linkouts
Sequence Crossreferences
	DDBJ / EMBL / GenBank • AA433224 AAA65480 AAB02282 AAB59239 AAB68481 AAC47812 AAF77227 AAF77245 AAQ92343 AF200828 AF200829 AJ400907 AY383542 CAB91052 J01404 M18022 M57910 U37541 U51619 Entrez Gene - A searchable database of RefSeq genes. • 192469 UniProtKB/Swiss-Prot • P00399
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Cytochrome c oxidase, subunit I (IPR000883) Cytochrome c oxidase, subunit I, copper-binding site (IPR023615) Cytochrome c oxidase, subunit I domain (IPR023616)
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0013674 DRSC - Results from RNAi screens. • FBgn0013674 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0013674 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0013674 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 192469 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 192469 modMine - Data generated by the modENCODE project. • FBgn0013674
Synonyms & Secondary IDs ( 31 )
Reported As
Symbol Synonym	anon-EST:fe1F8   CcO subunit I (Sohal et al., 2008) CG34067 (FlyBase Genome Annotators, 2005, Keleman et al., 2009.8.5) CO (Burnell et al., 1991) CO1 (Seligmann, 2012) COI (Fitzpatrick, 2002, Giribet et al., 2001, Stenico and Nigro, 1998, O'Grady et al., 1998, Tautz and Schmid, 1998, Gleason et al., 1997, Calleja et al., 1993, Nunes et al., 2007, Roberti et al., 2006, Ballard, 2000, Goto et al., 2000, van der Linde et al., 2010, Cao et al., 2011, Hatadani et al., 2009, Nunes et al., 2008, Kopp and Barmina, 2005, Shim et al., 2009, Bruni et al., 2012) CO I (Azou and Bregliano, 2001) CoI (Nigro et al., 1991, Montooth et al., 2009) Co I (Iijima-Ando et al., 2009, Lee et al., 2009, Chang and Min, 2005) COX (Walker and Benzer, 2004, Galloni, 2003, Maier et al., 2001, von Stockum et al., 2011, Tiefenböck et al., 2010) cox1 (Torres et al., 2009, Stewart and Beckenbach, 2009) coxI (Schwarze et al., 1998) COXI (Matsushima and Kaguni, 2007, Peralta et al., 2012, Humphrey et al., 2012) COX I (Sanchez-Martinez et al., 2012) Cyt.ox.I (Shaw et al., 2000) I (Szuplewski and Terracol, 2001) mt:CoI (Xu et al., 2008, Barnes et al., 2010) mt-CO1 (Peralta et al., 2012)
Name Synonym	anon-fast-evolving-1F8   COX subunit 1 (Tiefenböck et al., 2010) cytochrome c (Garber and Margoliash, 1994, Caffrey and Cusanovich, 1994) Cytochrome c oxidase (Kang et al., 2002) cytochrome c oxidase (Galloni, 2003) cytochrome c oxidase subunit I (Sohal et al., 2008, Iijima-Ando et al., 2009, Lee et al., 2009, Humphrey et al., 2012) Cytochrome c oxidase subunit I (Montooth et al., 2009) cytochrome oxidase I (Ballard, 2000) cytochrome oxidase subunit I (Goto et al., 2000, von Stockum et al., 2011) Cytochrome oxidase subunit I (Kopp and Barmina, 2005) mitochondrial Cytochrome c oxidase subunit I   mitochondrial cytochrome c oxidase subunit I (Nunes et al., 2008) mitochondrial cytochrome oxidase C (subunit I) (Cirelli, 2003)
Secondary FlyBase IDs
	FBgn0002867 FBgn0025247
References ( 118 )
Generate a list of	All references relating to this gene ( 118 )
List References by type	Research paper  ( 57 ) Supplementary material  ( 1 ) Review  ( 4 ) Personal communication to FlyBase  ( 2 ) Abstract  ( 1 ) FlyBase analysis  ( 3 ) Letter  ( 1 ) Protein sequence record  ( 1 ) DNA/RNA sequence record  ( 48 )
Recent research papers ( 11 )
	Ilinsky, 2013, PLoS ONE 8(1): e54373 Coevolution of Drosophila melanogaster mtDNA and Wolbachia Genotypes. [FBrf0220609] Li et al., 2013, Molec. Phylog. Evol. 66(1): 412--416 Phylogenetic relationship among East Asian species of the Stegana genus group (Diptera, Drosophilidae). [FBrf0220078] Bruni et al., 2012, Mitochondrion 12(5): 492--499 D-MTERF5 is a novel factor modulating transcription in Drosophila mitochondria. [FBrf0219394] Humphrey et al., 2012, Hum. Mol. Genet. 21(12): 2698--2712 Alternative oxidase rescues mitochondria-mediated dopaminergic cell loss in Drosophila. [FBrf0218424] Morales-Hojas and Vieira, 2012, PLoS ONE 7(11): e49552 Phylogenetic patterns of geographical and ecological diversification in the subgenus Drosophila. [FBrf0220006] Oliveira et al., 2012, Molec. Phylog. Evol. 64(3): 533--544 Monophyly, divergence times, and evolution of host plant use inferred from a revised phylogeny of the Drosophila repleta species group. [FBrf0218731] Peralta et al., 2012, J. Biol. Chem. 287(29): 24174--24185 Coiled Coil Domain-containing Protein 56 (CCDC56) Is a Novel Mitochondrial Protein Essential for Cytochrome c Oxidase Function. [FBrf0218928] Sanchez-Martinez et al., 2012, PLoS ONE 7(8): e43954 Modeling pathogenic mutations of human twinkle in Drosophila suggests an apoptosis role in response to mitochondrial defects. [FBrf0219379] Seligmann, 2012, J. Theor. Biol. 298: 51--76 An overlapping genetic code for frameshifted overlapping genes in Drosophila mitochondria: Antisense antitermination tRNAs UAR insert serine. [FBrf0217548] Cao et al., 2011, Molec. Phylog. Evol. 61(3): 677--685 Phylogeny of the African and Asian Phortica (Drosophilidae) deduced from nuclear and mitochondrial DNA sequences. [FBrf0216674] von Stockum et al., 2011, J. Biol. Chem. 286(48): 41163--41170 Properties of Ca2+ Transport in Mitochondria of Drosophila melanogaster. [FBrf0216710] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2011 Show reviews ...