Human Gene COX6C (ENST00000520468.7_7) from GENCODE V47lift37
  Description: cytochrome c oxidase subunit 6C (from RefSeq NM_004374.4)
Gencode Transcript: ENST00000520468.7_7
Gencode Gene: ENSG00000164919.11_11
Transcript (Including UTRs)
   Position: hg19 chr8:100,890,093-100,905,935 Size: 15,843 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr8:100,899,733-100,904,249 Size: 4,517 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:100,890,093-100,905,935)mRNA (may differ from genome)Protein (75 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: COX6C_HUMAN
DESCRIPTION: RecName: Full=Cytochrome c oxidase subunit 6C; AltName: Full=Cytochrome c oxidase polypeptide VIc;
FUNCTION: This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport.
SUBCELLULAR LOCATION: Mitochondrion inner membrane.
SIMILARITY: Belongs to the cytochrome c oxidase subunit 6c family.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/COX6CID251.html";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 96.57 RPKM in Heart - Left Ventricle
Total median expression: 2061.76 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -31.00100-0.310 Picture PostScript Text
3' UTR -96.70416-0.232 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR004204 - Cyt_c_oxidase_su6c

Pfam Domains:
PF02937 - Cytochrome c oxidase subunit VIc

SCOP Domains:
81415 - Mitochondrial cytochrome c oxidase subunit VIc

ModBase Predicted Comparative 3D Structure on P09669
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004129 cytochrome-c oxidase activity

Biological Process:
GO:0006091 generation of precursor metabolites and energy
GO:0022900 electron transport chain
GO:1902600 hydrogen ion transmembrane transport

Cellular Component:
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  S82616 - p6=cytochrome c oxidase subunit VIc homolog/COSVIc/prostatic carcinoma upregulated gene [human, prostate carcinoma cell line PC3, mRNA Partial, 261 nt].
BC000187 - Homo sapiens cytochrome c oxidase subunit VIc, mRNA (cDNA clone MGC:1520 IMAGE:3350637), complete cds.
GQ901011 - Homo sapiens clone HEL-T-123 epididymis secretory sperm binding protein mRNA, complete cds.
AK123472 - Homo sapiens cDNA FLJ41478 fis, clone BRTHA2002376.
AK128382 - Homo sapiens cDNA FLJ46525 fis, clone THYMU3034616.
X13238 - Human mRNA for cytochrome c oxidase subunit VIc.
JD171178 - Sequence 152202 from Patent EP1572962.
JD426904 - Sequence 407928 from Patent EP1572962.
AK311791 - Homo sapiens cDNA, FLJ92052, Homo sapiens cytochrome c oxidase subunit VIc (COX6C), mRNA.
BT007007 - Homo sapiens cytochrome c oxidase subunit VIc mRNA, complete cds.
DQ890542 - Synthetic construct clone IMAGE:100003172; FLH163890.01X; RZPDo839A06162D cytochrome c oxidase subunit VIc (COX6C) gene, encodes complete protein.
EU831617 - Synthetic construct Homo sapiens clone HAIB:100066646; DKFZo007D0219 cytochrome c oxidase subunit VIc protein (COX6C) gene, encodes complete protein.
DQ896797 - Synthetic construct Homo sapiens clone IMAGE:100011257; FLH163886.01L; RZPDo839A06161D cytochrome c oxidase subunit VIc (COX6C) gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-3781 - aerobic respiration I (cytochrome c)

Reactome (by CSHL, EBI, and GO)

Protein P09669 (Reactome details) participates in the following event(s):

R-HSA-163214 Electron transfer from reduced cytochrome c to molecular oxygen
R-HSA-611105 Respiratory electron transport
R-HSA-5628897 TP53 Regulates Metabolic Genes
R-HSA-163200 Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-1428517 The citric acid (TCA) cycle and respiratory electron transport
R-HSA-212436 Generic Transcription Pathway
R-HSA-1430728 Metabolism
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B2R4D7, COX6C_HUMAN, ENST00000520468.1, ENST00000520468.2, ENST00000520468.3, ENST00000520468.4, ENST00000520468.5, ENST00000520468.6, NM_004374, P09669, uc323tsc.1, uc323tsc.2
UCSC ID: ENST00000520468.7_7
RefSeq Accession: NM_004374.4
Protein: P09669 (aka COX6C_HUMAN or COXH_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.