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Gene Dyak\mt:CoI

General Information
Symbol	Dyak\mt:CoI	Species	D. yakuba
Name	mitochondrial Cytochrome c oxidase subunit I	Annotation symbol
Feature type	protein_coding_gene	FlyBase ID	FBgn0013179
Gene Model Status	Unannotated	Stock availability	None publicly available
Also Known As	COI
Genomic Location
Chromosome (arm)		Recombination map
Cytogenetic map		Sequence location
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 Dyak\mt:CoI (FBgn0013179). It is a protein_coding_gene from Drosophila yakuba. An electronic pipeline based on InterPro domains suggests that it has the molecular function: cytochrome-c oxidase activity; heme binding; iron ion binding; electron carrier activity. An electronic pipeline based on InterPro domains suggests that it is involved in the biological process: aerobic respiration. No alleles are reported. It has no annotated transcripts. Protein features are: Cytochrome c oxidase, subunit I; Cytochrome c oxidase, subunit I domain; Cytochrome c oxidase, subunit I, copper-binding site. Gene has not been localized to the genome sequence.
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.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
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
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa)
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
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 X03240 CAC14066
UniProtKB/Swiss-Prot	P00400
UniProtKB/TrEMBL
Mapped Features
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
modENCODE Anatomy RNA-Seq
modENCODE Development RNA-Seq
modENCODE Cell Lines RNA-Seq
modENCODE Treatments RNA-Seq
Expression Clusters
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of Dyak\mt:CoI Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Dyak\mt:CoI Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 6 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 6 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-) 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-)
Cellular Component
CV term Evidence References
integral to membrane inferred from electronic annotation with InterPro:IPR000883 (FlyBase Curators et al., 2004-)
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 Dyak\mt:CoI allele Gene References
External Data
Linkouts
Orthologs
OrthoDB Orthologs (0) - 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 No orthologs identified Arthropod inclusive ortholog search No orthologs identified Metazoa inclusive ortholog search No orthologs identified
Ortholog(s) in Drosophila melanogaster (None identified)
No D. melanogaster orthologies identified
Human Orthologs (0)
Gene OMIM HGNC
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 ( 0 )
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
RNAi & Array Information
Linkouts
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	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)
External Crossreferences & Linkouts
Sequence Crossreferences
	DDBJ / EMBL / GenBank • CAC14066 X03240 Entrez Gene - A searchable database of RefSeq genes. • 807622 UniProtKB/Swiss-Prot • P00400
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
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	COI (Wolstenholme, 1992, Stenico and Nigro, 1998, O'Grady et al., 1998, Tautz and Schmid, 1998, Gleason et al., 1997, Ballard, 2000) CoI (Nigro et al., 1991, Montooth et al., 2009) Dyak\mt:CoI
Name Synonym	Cytochrome c oxidase subunit I (Montooth et al., 2009) cytochrome oxidase I (Ballard, 2000) mitochondrial Cytochrome c oxidase subunit I
Secondary FlyBase IDs
	FBgn0002867
References ( 19 )
Research paper	Montooth et al., 2009, J. Mol. Evol. 69(1): 94--114 Comparative genomics of Drosophila mtDNA: Novel features of conservation and change across functional domains and lineages. [FBrf0208414] Ballard, 2000, J. Mol. Evol. 51(1): 48--63 Comparative genomics of mitochondrial DNA in members of the Drosophila melanogaster subgroup. [FBrf0128384] O'Grady et al., 1998, Mol. Biol. Evol. 15(6): 656--664 Phylogeny of the Drosophila saltans species group based on combined analysis of nuclear and mitochondrial DNA sequences. [FBrf0102991] Gleason et al., 1997, Evolution 51(2): 433--440 Mitochondrial DNA phylogenies for the Drosophila obscura group. [FBrf0094787] Moriyama and Powell, 1997, J. Mol. Evol. 45(4): 378--391 Synonymous substitution rates in Drosophila: mitochondrial versus nuclear genes. [FBrf0098855] Schmid and Tautz, 1997, Proc. Natl. Acad. Sci. U.S.A. 94(18): 9746--9750 A screen for fast evolving genes from Drosophila. [FBrf0098343] Spicer and Pitnick, 1996, J. Mol. Evol. 43(3): 281--286 Molecular systematics of the Drosophila hydei subgroup as inferred from mitochondrial DNA sequences. [FBrf0090809] Spicer and Jaenike, 1996, Evolution 50(6): 2328--2337 Phylogenetic analysis of breeding site use and -amanitin tolerance within the Drosophila quinaria species group. [FBrf0092690] Nigro et al., 1991, J. Mol. Evol. 33(2): 156--162 Mitochondrial DNA sequence divergence in the melanogaster and oriental species subgroups of Drosophila. [FBrf0054555] Clary and Wolstenholme, 1985, J. Mol. Evol. 22: 252--271 The mitochondrial DNA molecule of Drosophila yakuba: Nucleotide sequence, gene organization and genetic code. [FBrf0043117] Clary and Wolstenholme, 1985, Nucleic Acids Res. 13: 4029--4045 The ribosomal RNA genes of Drosophila mitochondrial DNA. [FBrf0043378] Clary et al., 1984, Nucleic Acids Res. 12: 3747--3762 Sequence and arrangement of the genes for cytochrome b, URF1, URF4L, URF4, URF5, URF6 and five tRNAs in Drosophila mitochondrial DNA. [FBrf0041585] Clary and Wolstenholme, 1983, Nucleic Acids Res. 11(19): 6859--6872 Genes for cytochrome c oxidase subunit I, URF2, and three tRNAs in Drosophila mitochondrial DNA. [FBrf0040065] Clary et al., 1983, Nucleic Acids Res. 11: 2411--2425 Transfer RNA genes in Drosophila mitochondrial DNA: related 5' flanking sequences and comparisons to mammalian mitochondrial tRNA genes. [FBrf0040053] Clary et al., 1982, Nucleic Acids Res. 10: 6619--6637 Drosophila mitochondrial DNA: a novel gene order. [FBrf0038561]
Review	Tautz and Schmid, 1998, Philos. Trans. R. Soc. Lond. B. Biol. Sci. 353(1366): 231--240 From genes to individuals: developmental genes and the generation of the phenotype. [FBrf0100798] Wolstenholme, 1992, Curr. Opin. Genet. Dev. 2: 918--925 Genetic novelties in mitochondrial genomes of multicellular animals. [FBrf0159676]
Personal communication to FlyBase	FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215]
Letter	Stenico and Nigro, 1998, Mol. Biol. Evol. 15(6): 777--778 Differences in evolutionary rates among amino acid classes in the mitochondrial genes cytochrome oxidase I and cytochrome oxidase II in Drosophila. [FBrf0103044]