Mt-nd6 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 6) - Rat Genome Database

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Gene: Mt-nd6 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 6) Rattus norvegicus
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Symbol: Mt-nd6
Name: mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 6
RGD ID: 620561
Description: Predicted to enable NADH dehydrogenase (ubiquinone) activity. Involved in response to cocaine; response to hydrogen peroxide; and response to nicotine. Predicted to be located in mitochondrial inner membrane. Predicted to be part of mitochondrial respiratory chain complex I. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in Leber hereditary optic neuropathy; Leigh disease; and spinal muscular atrophy with lower extremity predominant 2B. Orthologous to human MT-ND6 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: mitochondrially encoded NADH dehydrogenase 6; NADH dehydrogenase 6, mitochondrial; NADH dehydrogenase subunit 6; Nd6
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2MT13,543 - 14,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT13,543 - 14,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT13,543 - 14,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblMT13,543 - 14,061 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0MT13,543 - 14,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblMT13,543 - 14,061 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0MT13,543 - 14,061 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4MT13,543 - 14,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic MapMT NCBI


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(R)-carnitine  (ISO)
1,2-dichloroethane  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-methyl-4-oxido-2-pyrazin-4-iumcarboxylic acid  (ISO)
alpha-D-galactose  (ISO)
antimycin A  (ISO)
aristolochic acid A  (ISO)
astaxanthin  (ISO)
atrazine  (EXP,ISO)
azoxystrobin  (ISO)
beauvericin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
chrysene  (ISO)
citraconic acid  (ISO)
copper(II) sulfate  (ISO)
deguelin  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dioxygen  (ISO)
doxorubicin  (EXP,ISO)
enniatin  (ISO)
flutamide  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
galactose  (ISO)
geldanamycin  (ISO)
gentamycin  (EXP)
indometacin  (ISO)
Licochalcone B  (ISO)
lipopolysaccharide  (ISO)
mancozeb  (ISO)
methidathion  (ISO)
methylmercury chloride  (ISO)
microcystin-LR  (EXP)
monosodium L-glutamate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel dichloride  (ISO)
ochratoxin A  (ISO)
perfluorooctanoic acid  (EXP)
picoxystrobin  (ISO)
potassium chromate  (ISO)
pyrimidifen  (ISO)
reactive oxygen species  (ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
T-2 toxin  (EXP)
tebufenpyrad  (ISO)
tetraphene  (ISO)
thapsigargin  (ISO)
thifluzamide  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Cocaine self-administration alters brain NADH dehydrogenase mRNA levels. Couceyro P, etal., Neuroreport. 1997 Jul 28;8(11):2437-41.
2. Progressive myoclonic epilepsy as an adult-onset manifestation of Leigh syndrome due to m.14487T>C. Dermaut B, etal., J Neurol Neurosurg Psychiatry. 2010 Jan;81(1):90-3.
3. The complete nucleotide sequence of the Rattus norvegicus mitochondrial genome: cryptic signals revealed by comparative analysis between vertebrates. Gadaleta G, etal., J Mol Evol 1989 Jun;28(6):497-516.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Modulation of mitochondrial gene expression in pulmonary epithelial cells exposed to oxidants. Janssen YM, etal., Environ Health Perspect. 1998 Oct;106 Suppl 5:1191-5.
6. A mitochondrial DNA mutation at nucleotide pair 14459 of the NADH dehydrogenase subunit 6 gene associated with maternally inherited Leber hereditary optic neuropathy and dystonia. Jun AS, etal., Proc Natl Acad Sci U S A. 1994 Jun 21;91(13):6206-10.
7. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
8. Frequency and spectrum of mitochondrial ND6 mutations in 1218 Han Chinese subjects with Leber's hereditary optic neuropathy. Liang M, etal., Invest Ophthalmol Vis Sci. 2014 Mar 6;55(3):1321-31. doi: 10.1167/iovs.13-13011.
9. Mouse mtDNA mutant model of Leber hereditary optic neuropathy. Lin CS, etal., Proc Natl Acad Sci U S A. 2012 Dec 4;109(49):20065-70. doi: 10.1073/pnas.1217113109. Epub 2012 Nov 5.
10. Novel mutations of ND genes in complex I deficiency associated with mitochondrial encephalopathy. Malfatti E, etal., Brain. 2007 Jul;130(Pt 7):1894-904. Epub 2007 May 29.
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Comprehensive gene review and curation RGD comprehensive gene curation
16. Significant modulation of mitochondrial electron transport system by nicotine in various rat brain regions. Wang J, etal., Mitochondrion. 2009 Jun;9(3):186-95. Epub 2009 Jan 30.
17. Predose blood gene expression profiles might identify the individuals susceptible to carbon tetrachloride-induced hepatotoxicity. Yun JW, etal., Toxicol Sci. 2010 May;115(1):12-21. doi: 10.1093/toxsci/kfq037. Epub 2010 Feb 3.
18. A novel mtDNA ND6 gene mutation associated with LHON in a Caucasian family. Zhadanov SI, etal., Biochem Biophys Res Commun. 2005 Jul 15;332(4):1115-21.
19. Mitochondrial haplotypes may modulate the phenotypic manifestation of the LHON-associated m.14484T>C (MT-ND6) mutation in Chinese families. Zhang J, etal., Mitochondrion. 2013 Nov;13(6):772-81. doi: 10.1016/j.mito.2013.05.002. Epub 2013 May 9.
20. Leber's hereditary optic neuropathy is associated with mitochondrial ND6 T14502C mutation. Zhao F, etal., Biochem Biophys Res Commun. 2009 Nov 20;389(3):466-72. doi: 10.1016/j.bbrc.2009.08.168. Epub 2009 Sep 2.

Genomics

Comparative Map Data
Mt-nd6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2MT13,543 - 14,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT13,543 - 14,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT13,543 - 14,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblMT13,543 - 14,061 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0MT13,543 - 14,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblMT13,543 - 14,061 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0MT13,543 - 14,061 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4MT13,543 - 14,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic MapMT NCBI
MT-ND6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38MT14,149 - 14,673 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblMT14,149 - 14,673 (-)EnsemblGRCh38hg38GRCh38
GRCh37MT14,149 - 14,673 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36MT14,150 - 14,674 (-)NCBINCBI36Build 36hg18NCBI36
mt-Nd6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39MT13,552 - 14,070 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblMT13,552 - 14,070 (-)EnsemblGRCm39 Ensembl
GRCm38MT13,552 - 14,070 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblMT13,552 - 14,070 (-)EnsemblGRCm38mm10GRCm38
MGSCv37MT13,552 - 14,070 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MT-ND6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1MT13,582 - 14,109 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblMT13,582 - 14,109 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaMT13,582 - 14,109 (-)NCBIDog10K_Boxer_Tasha
MT-ND6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblMT14,739 - 15,266 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1MT14,739 - 15,266 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2MT14,739 - 15,266 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Mt-nd6
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:216
Count of miRNA genes:161
Interacting mature miRNAs:177
Transcripts:ENSRNOT00000051268
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 3 3 3 3 1 3 3 3 3 2 2
Medium 40 54 38 18 38 8 8 71 32 39 9 8
Low
Below cutoff

Sequence

Nucleotide Sequences
GenBank Nucleotide AY172581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FJ919765 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KJ939360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KJ939361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM009112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM009113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM009114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM114603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM114604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM114605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM114606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM114607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM114608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM577635 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM657952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KM657953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KP244683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000051268   ⟹   ENSRNOP00000045645
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblMT13,543 - 14,061 (-)Ensembl
Rnor_6.0 EnsemblMT13,543 - 14,061 (-)Ensembl
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000045645   ⟸   ENSRNOT00000051268

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P03926-F1-model_v2 AlphaFold P03926 1-172 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620561 AgrOrtholog
BioCyc Gene G2FUF-5 BioCyc
BioCyc Pathway PWY-3781 [aerobic respiration I (cytochrome c)] BioCyc
BioCyc Pathway Image PWY-3781 BioCyc
Ensembl Genes ENSRNOG00000029042 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000051268.3 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.120.1200 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro NADH_UbQ/plastoQ_OxRdtase_su6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nuo/plastoQ_OxRdtase_6_NuoJ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:26203 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 26203 ENTREZGENE
PANTHER NADH UBIQUINONE OXIDOREDUCTASE SUBUNIT ND6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NADH-UBIQUINONE OXIDOREDUCTASE CHAIN 6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Oxidored_q3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mt-nd6 PhenoGen
RatGTEx ENSRNOG00000029042 RatGTEx
UniProt A0A7T7FP65 ENTREZGENE, UniProtKB/TrEMBL
  NU6M_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q8HIC5 ENTREZGENE, UniProtKB/TrEMBL
  Q9ZZM7 ENTREZGENE
UniProt Secondary Q9ZZM7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-03-17 Mt-nd6  mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 6  Mt-nd6  mitochondrially encoded NADH dehydrogenase 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-08-29 Mt-nd6  mitochondrially encoded NADH dehydrogenase 6  mt-Nd6  NADH dehydrogenase 6, mitochondrial  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 mt-Nd6  NADH dehydrogenase 6, mitochondrial      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 mt-Nd6  NADH dehydrogenase 6, mitochondrial      Symbol and Name status set to provisional 70820 PROVISIONAL