Mt-nd2 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 2) - Rat Genome Database

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Gene: Mt-nd2 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 2) Rattus norvegicus
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Symbol: Mt-nd2
Name: mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 2
RGD ID: 620556
Description: Enables ionotropic glutamate receptor binding activity and protein kinase binding activity. Involved in response to hypoxia. Predicted to be located in mitochondrial inner membrane. Predicted to be part of mitochondrial respiratory chain complex I. Human ortholog(s) of this gene implicated in Leber hereditary optic neuropathy; multiple sclerosis; myocardial infarction; neurodegenerative disease (multiple); and urinary bladder cancer. Orthologous to human MT-ND2 (mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 2); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acetamiprid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: mitochondrially encoded NADH dehydrogenase 2; NADH dehydrogenase 2, mitochondrial; NADH dehydrogenase subunit 2; Nd2
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
mRatBN7.2MT3,904 - 4,942 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT3,904 - 4,942 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT3,904 - 4,942 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblMT3,904 - 4,942 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0MT3,904 - 4,942 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblMT3,904 - 4,942 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0MT3,904 - 4,942 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4MT3,904 - 4,942 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic MapMT NCBI


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Mitochondrial DNA mutations in chemical carcinogen-induced rat bladder and human bladder cancer. Chen GF, etal., Oncol Rep. 2004 Aug;12(2):463-72.
2. 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.
3. 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.
4. Unique domain anchoring of Src to synaptic NMDA receptors via the mitochondrial protein NADH dehydrogenase subunit 2. Gingrich JR, etal., Proc Natl Acad Sci U S A. 2004 Apr 20;101(16):6237-42. Epub 2004 Apr 6.
5. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
6. Mitochondrial NADH dehydrogenase and CYP2D6 genotypes in Lewy-body parkinsonism. Kosel S, etal., J Neurosci Res. 1996 Apr 15;44(2):174-83.
7. Novel mutations of mitochondrial complex I in pathologically proven Parkinson disease. Kosel S, etal., Neurogenetics. 1998 Mar;1(3):197-204.
8. Identification of novel mitochondrial mutations in Leber's hereditary optic neuropathy. Kumar M, etal., Mol Vis. 2010 Apr 30;16:782-92.
9. The association of mitochondrial DNA 5178 C > a polymorphism with plasma lipid levels among three ethnic groups. Lal S, etal., Ann Hum Genet. 2005 Nov;69(Pt 6):639-44.
10. Detection of point mutations in codon 331 of mitochondrial NADH dehydrogenase subunit 2 in Alzheimer's brains. Lin FH, etal., Biochem Biophys Res Commun. 1992 Jan 15;182(1):238-46.
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Is a point mutation in the mitochondrial ND2 gene associated with Alzheimer's disease. Petruzzella V, etal., Biochem Biophys Res Commun. 1992 Jul 15;186(1):491-7.
13. GOA pipeline RGD automated data pipeline
14. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. Comprehensive gene review and curation RGD comprehensive gene curation
17. Mitochondrial DNA mutations in patients with orthostatic hypotension. Schwartz F, etal., Am J Med Genet. 1999 Sep 10;86(2):145-50.
18. Association of a 5178C-->A (Leu237Met) polymorphism in the mitochondrial DNA with a low prevalence of myocardial infarction in Japanese individuals. Takagi K, etal., Atherosclerosis. 2004 Aug;175(2):281-6.
19. Association of common mitochondrial DNA variants with multiple sclerosis and systemic lupus erythematosus. Vyshkina T, etal., Clin Immunol. 2008 Oct;129(1):31-5. Epub 2008 Aug 16.
20. WY14643 improves left ventricular myocardial mitochondrial and systolic functions in obese rats under chronic persistent hypoxia via the PPARα pathway. Yan J, etal., Life Sci. 2021 Feb 1;266:118888. doi: 10.1016/j.lfs.2020.118888. Epub 2020 Dec 10.
Additional References at PubMed
PMID:22414913  


Genomics

Comparative Map Data
Mt-nd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2MT3,904 - 4,942 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT3,904 - 4,942 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2MT3,904 - 4,942 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblMT3,904 - 4,942 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0MT3,904 - 4,942 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblMT3,904 - 4,942 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0MT3,904 - 4,942 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4MT3,904 - 4,942 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic MapMT NCBI
MT-ND2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38MT4,470 - 5,511 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblMT4,470 - 5,511 (+)EnsemblGRCh38hg38GRCh38
GRCh37MT4,470 - 5,511 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36MT4,471 - 5,512 (+)NCBINCBI36Build 36hg18NCBI36
mt-Nd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39MT3,914 - 4,951 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblMT3,914 - 4,951 (+)EnsemblGRCm39 Ensembl
GRCm38MT3,914 - 4,951 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblMT3,914 - 4,951 (+)EnsemblGRCm38mm10GRCm38
MGSCv37MT3,914 - 4,951 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MT-ND2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1MT3,914 - 4,955 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblMT3,914 - 4,957 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaMT3,914 - 4,955 (+)NCBIDog10K_Boxer_Tasha
ND2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblMT5,087 - 6,128 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1MT5,087 - 6,128 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2MT5,087 - 6,128 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Mt-nd2
14 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:16
Count of miRNA genes:13
Interacting mature miRNAs:16
Transcripts:ENSRNOT00000040993
Prediction methods: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.

Markers in Region
RH136367  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0MT2,338 - 2,532UniSTSRnor5.0
RGSC_v3.4MT2,338 - 2,532UniSTSRGSC3.4
PMC312657P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0MT2,276 - 2,749UniSTSRnor5.0
RGSC_v3.4MT2,276 - 2,749UniSTSRGSC3.4
PMC31832P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0MT2,239 - 2,376UniSTSRnor5.0
RGSC_v3.4MT2,239 - 2,376UniSTSRGSC3.4


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 36 37 33 5 33 3 66 27 33 3
Medium 7 20 8 14 8 8 8 8 8 8 8 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: ENSRNOT00000040993   ⟹   ENSRNOP00000043885
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblMT3,904 - 4,942 (+)Ensembl
Rnor_6.0 EnsemblMT3,904 - 4,942 (+)Ensembl
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000043885   ⟸   ENSRNOT00000040993
Protein Domains
NADH dehydrogenase subunit 2 C-terminal   NADH:quinone oxidoreductase/Mrp antiporter membrane

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P11662-F1-model_v2 AlphaFold P11662 1-346 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:620556 AgrOrtholog
BioCyc Gene G2FUF-28 BioCyc
BioCyc Pathway PWY-3781 [aerobic respiration I (cytochrome c)] BioCyc
BioCyc Pathway Image PWY-3781 BioCyc
Ensembl Genes ENSRNOG00000031033 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000040993.4 UniProtKB/Swiss-Prot
InterPro NADH_DH_su2_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NADH_UbQ_OxRdtase_chain2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ND/Mrp_mem UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:26194 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 26194 ENTREZGENE
PANTHER NADH-UBIQUINONE OXIDOREDUCTASE CHAIN 2 UniProtKB/Swiss-Prot
  NADH-UBIQUINONE OXIDOREDUCTASE CHAIN 2 UniProtKB/Swiss-Prot
  NADH-UBIQUINONE OXIDOREDUCTASE CHAIN 2 UniProtKB/TrEMBL
  NADH-UBIQUINONE OXIDOREDUCTASE CHAIN 2 UniProtKB/TrEMBL
Pfam NADH_dehy_S2_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Proton_antipo_M UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mt-nd2 PhenoGen
PRINTS NADHDHGNASE2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031033 RatGTEx
UniProt D2E6P4 ENTREZGENE, UniProtKB/TrEMBL
  NU2M_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q8HID0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-03-17 Mt-nd2  mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 2  Mt-nd2  mitochondrially encoded NADH dehydrogenase 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-08-29 Mt-nd2  mitochondrially encoded NADH dehydrogenase 2  mt-Nd2  NADH dehydrogenase 2, mitochondrial  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 mt-Nd2  NADH dehydrogenase 2, mitochondrial      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 mt-Nd2  NADH dehydrogenase 2, mitochondrial      Symbol and Name status set to provisional 70820 PROVISIONAL