Mt-nd4 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 4) - Rat Genome Database

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Gene: Mt-nd4 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 4) Rattus norvegicus
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Symbol: Mt-nd4
Name: mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 4
RGD ID: 620559
Description: Predicted to enable NADH dehydrogenase (ubiquinone) activity and ubiquinone binding activity. Predicted to contribute to NADH dehydrogenase activity. Involved in several processes, including response to ethanol; response to hypoxia; and response to nicotine. Predicted to be located in mitochondrial inner membrane. Predicted to be part of respiratory chain complex I. Human ortholog(s) of this gene implicated in Leber hereditary optic neuropathy; Parkinson's disease; macular degeneration; and schizophrenia. Orthologous to human MT-ND4 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 4); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: mitochondrially encoded NADH dehydrogenase 4; NADH dehydrogenase 4, mitochondrial; NADH dehydrogenase subunit 4; Nd4
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8MT10,160 - 11,537 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblMT10,145 - 11,522 (+)EnsemblGRCr8
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblMT10,160 - 11,537 (+)EnsemblmRatBN7.2
Rnor_6.0MT10,160 - 11,537 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblMT10,160 - 11,537 (+)Ensemblrn6Rnor6.0
Rnor_5.0MT10,160 - 11,537 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4MT10,160 - 11,537 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Cytogenetic MapMT NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The expression of several mitochondrial and nuclear genes encoding the subunits of electron transport chain enzyme complexes, cytochrome c oxidase, and NADH dehydrogenase, in different brain regions in Alzheimer's disease. Aksenov MY, etal., Neurochem Res. 1999 Jun;24(6):767-74.
2. Mitochondrial variants may influence the phenotypic manifestation of Leber's hereditary optic neuropathy-associated ND4 G11778A mutation. Cai W, etal., J Genet Genomics. 2008 Nov;35(11):649-55.
3. Differential expression of mitochondrial NADH dehydrogenase in ethanol-treated rat brain: revealed by differential display. Chen W, etal., Alcohol Clin Exp Res. 1997 Sep;21(6):1053-6.
4. Optimized allotopic expression of the human mitochondrial ND4 prevents blindness in a rat model of mitochondrial dysfunction. Ellouze S, etal., Am J Hum Genet. 2008 Sep;83(3):373-87. Epub 2008 Sep 4.
5. 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.
6. 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.
7. Characterization of mitochondrial replication and transcription control during rat early development in vivo and in vitro. Kameyama Y, etal., Reproduction. 2007 Feb;133(2):423-32.
8. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
9. Novel mutations of mitochondrial complex I in pathologically proven Parkinson disease. Kosel S, etal., Neurogenetics. 1998 Mar;1(3):197-204.
10. Identification of novel mitochondrial mutations in Leber's hereditary optic neuropathy. Kumar M, etal., Mol Vis. 2010 Apr 30;16:782-92.
11. A mitochondrial DNA sequence variant associated with schizophrenia and oxidative stress. Marchbanks RM, etal., Schizophr Res. 2003 Dec 1;65(1):33-8.
12. New variants in the mitochondrial genomes of schizophrenic patients. Martorell L, etal., Eur J Hum Genet. 2006 May;14(5):520-8.
13. Regulating the age-related oxidative damage, mitochondrial integrity, and antioxidative enzyme activity in Fischer 344 rats by supplementation of the antioxidant epigallocatechin-3-gallate. Meng Q, etal., Rejuvenation Res. 2008 Jun;11(3):649-60.
14. [Ratio of natural DNA hydration to the GC content]. Mrevlishvili GM, Dokl Akad Nauk SSSR. 1981;260(3):761-4.
15. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
16. Oxygen tension regulates mitochondrial DNA-encoded complex I gene expression. Piruat JI and Lopez-Barneo J, J Biol Chem. 2005 Dec 30;280(52):42676-84. Epub 2005 Oct 28.
17. Content of mitochondrial DNA and of three mitochondrial RNAs in developing and adult rat cerebellum. Renis M, etal., J Neurochem. 1989 Mar;52(3):750-4.
18. GOA pipeline RGD automated data pipeline
19. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
21. Comprehensive gene review and curation RGD comprehensive gene curation
22. Mitochondrial DNA variants of respiratory complex I that uniquely characterize haplogroup T2 are associated with increased risk of age-related macular degeneration. SanGiovanni JP, etal., PLoS One. 2009;4(5):e5508. Epub 2009 May 12.
23. Asian-specific mtDNA backgrounds associated with the primary G11778A mutation of Leber's hereditary optic neuropathy. Sudoyo H, etal., J Hum Genet. 2002;47(11):594-604.
24. Mitochondrial DNA mutation associated with Leber's hereditary optic neuropathy. Wallace DC, etal., Science. 1988 Dec 9;242(4884):1427-30.
25. 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.
26. Leber's hereditary optic neuropathy is associated with the mitochondrial ND4 G11696A mutation in five Chinese families. Zhou X, etal., Biochem Biophys Res Commun. 2006 Feb 3;340(1):69-75. Epub 2005 Dec 6.
Additional References at PubMed
PMID:22414913   PMID:26316108  


Genomics

Comparative Map Data
Mt-nd4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8MT10,160 - 11,537 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblMT10,145 - 11,522 (+)EnsemblGRCr8
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT10,160 - 11,537 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblMT10,160 - 11,537 (+)EnsemblmRatBN7.2
Rnor_6.0MT10,160 - 11,537 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblMT10,160 - 11,537 (+)Ensemblrn6Rnor6.0
Rnor_5.0MT10,160 - 11,537 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4MT10,160 - 11,537 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Cytogenetic MapMT NCBI
MT-ND4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38MT10,760 - 12,137 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblMT10,760 - 12,137 (+)Ensemblhg38GRCh38
GRCh37MT10,760 - 12,137 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36MT10,761 - 12,138 (+)NCBIBuild 36Build 36hg18NCBI36
mt-Nd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39MT10,167 - 11,544 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblMT10,167 - 11,544 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38MT10,167 - 11,544 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblMT10,167 - 11,544 (+)Ensemblmm10GRCm38
MGSCv37MT10,167 - 11,544 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MT-ND4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1MT10,201 - 11,578 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblMT10,201 - 11,578 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaMT10,201 - 11,578 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
MT-ND4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblMT11,359 - 12,736 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1MT11,359 - 12,736 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2MT11,359 - 12,736 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Mt-nd4
19 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:81
Count of miRNA genes:67
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000042928
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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 155 79 78 47 92 47 6 334 192 11 134 71 84 31 17 17

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
  KJ530565 (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
  MW209726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000042928   ⟹   ENSRNOP00000043141
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblMT10,145 - 11,522 (+)Ensembl
mRatBN7.2 EnsemblMT10,160 - 11,537 (+)Ensembl
Rnor_6.0 EnsemblMT10,160 - 11,537 (+)Ensembl
Ensembl Acc Id: ENSRNOP00000043141   ⟸   ENSRNOT00000042928
Protein Domains
NADH:quinone oxidoreductase/Mrp antiporter   NADH:ubiquinone oxidoreductase chain 4 N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P05508-F1-model_v2 AlphaFold P05508 1-459 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:620559 AgrOrtholog
BioCyc Gene G2FUF-10 BioCyc
BioCyc Pathway PWY-3781 [aerobic respiration I (cytochrome c)] BioCyc
BioCyc Pathway Image PWY-3781 BioCyc
Ensembl Genes ENSRNOG00000029707 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000042928.3 UniProtKB/Swiss-Prot
InterPro NADH4_N UniProtKB/Swiss-Prot
  NADH_Q_OxRdtase_chainM/4 UniProtKB/Swiss-Prot
  NADH_UbQ_OxRdtase UniProtKB/Swiss-Prot
  ND/Mrp_mem UniProtKB/Swiss-Prot
KEGG Report rno:26201 UniProtKB/Swiss-Prot
NCBI Gene 26201 ENTREZGENE
PANTHER NADH-UBIQUINONE OXIDOREDUCTASE CHAIN 4 UniProtKB/Swiss-Prot
  PTHR43507 UniProtKB/Swiss-Prot
Pfam Oxidored_q5_N UniProtKB/Swiss-Prot
  Proton_antipo_M UniProtKB/Swiss-Prot
PhenoGen Mt-nd4 PhenoGen
PRINTS NUOXDRDTASE4 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000029707 RatGTEx
UniProt NU4M_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q06Q89_RAT UniProtKB/TrEMBL
  Q7HKW3 ENTREZGENE, UniProtKB/TrEMBL
  Q8HIC6 ENTREZGENE, UniProtKB/TrEMBL
  Q9T528 ENTREZGENE
UniProt Secondary Q9T528 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-03-17 Mt-nd4  mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 4  Mt-nd4  mitochondrially encoded NADH dehydrogenase 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-08-29 Mt-nd4  mitochondrially encoded NADH dehydrogenase 4  mt-Nd4  NADH dehydrogenase 4, mitochondrial  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 mt-Nd4  NADH dehydrogenase 4, mitochondrial      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 mt-Nd4  NADH dehydrogenase 4, mitochondrial      Symbol and Name status set to provisional 70820 PROVISIONAL