Ndufs4 (NADH:ubiquinone oxidoreductase subunit S4) - Rat Genome Database

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Gene: Ndufs4 (NADH:ubiquinone oxidoreductase subunit S4) Rattus norvegicus
Analyze
Symbol: Ndufs4
Name: NADH:ubiquinone oxidoreductase subunit S4
RGD ID: 1594380
Description: Predicted to contribute to NADH dehydrogenase (ubiquinone) activity. Predicted to be involved in cellular respiration; positive regulation of fibroblast proliferation; and response to cAMP. Predicted to act upstream of or within several processes, including adult walking behavior; mitochondrial respiratory chain complex I assembly; and nervous system development. 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 Leigh disease and nuclear type mitochondrial complex I deficiency 1. Orthologous to human NDUFS4 (NADH:ubiquinone oxidoreductase subunit S4); PARTICIPATES IN Alzheimer's disease pathway; Huntington's disease pathway; oxidative phosphorylation pathway; INTERACTS WITH 2,2,2-tetramine; 6-propyl-2-thiouracil; aflatoxin B1.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Aqdq; CI-18 kDa; complex I-18 kDa; NADH dehydrogenase (ubiquinone) Fe-S protein 4; NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase); NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial; NADH-ubiquinone oxidoreductase 18 kDa subunit
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8247,684,420 - 47,794,914 (-)NCBIGRCr8
mRatBN7.2245,951,327 - 46,061,829 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl245,951,313 - 46,061,846 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx253,055,093 - 53,165,153 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0251,113,456 - 51,223,515 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0245,988,050 - 46,102,968 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0246,372,488 - 46,476,162 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl246,372,518 - 46,476,203 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0265,403,197 - 65,515,243 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4245,839,236 - 46,479,619 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera241,712,356 - 41,822,320 (-)NCBICelera
Cytogenetic Map2q14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
(S)-colchicine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-nitropyrene  (ISO)
2,2,2-tetramine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3-methyladenine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (EXP,ISO)
amitrole  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
casticin  (ISO)
chloropicrin  (ISO)
choline  (ISO)
cisplatin  (ISO)
copper(II) chloride  (ISO)
corosolic acid  (ISO)
deoxynivalenol  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dopamine  (ISO)
doxorubicin  (ISO)
edaravone  (EXP)
elemental selenium  (ISO)
enniatin  (EXP)
ethanol  (ISO)
fenthion  (ISO)
flutamide  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
isoniazide  (ISO)
isoprenaline  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
methimazole  (EXP)
methoxychlor  (EXP)
monosodium L-glutamate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
NAD zwitterion  (ISO)
NAD(+)  (ISO)
Nutlin-3  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
phlorizin  (ISO)
pirinixic acid  (ISO)
pyrroloquinoline quinone  (EXP,ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
sarin  (ISO)
selenium atom  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
streptozocin  (EXP)
sulfadimethoxine  (EXP)
T-2 toxin  (EXP)
taurine  (ISO)
tetrachloromethane  (ISO)
tolcapone  (EXP)
toluene  (EXP)
Triptolide  (EXP)
tungsten  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. A novel mutation in NDUFS4 causes Leigh syndrome in an Ashkenazi Jewish family. Anderson SL, etal., J Inherit Metab Dis. 2008 Dec;31 Suppl 2:S461-7. Epub 2008 Dec 26.
2. Genotyping microsatellite DNA markers at putative disease loci in inbred/multiplex families with respiratory chain complex I deficiency allows rapid identification of a novel nonsense mutation (IVS1nt -1) in the NDUFS4 gene in Leigh syndrome. Benit P, etal., Hum Genet. 2003 May;112(5-6):563-6. Epub 2003 Mar 4.
3. Loss of mitochondrial complex I activity potentiates dopamine neuron death induced by microtubule dysfunction in a Parkinson's disease model. Choi WS, etal., J Cell Biol. 2011 Mar 7;192(5):873-82.
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. Mice with mitochondrial complex I deficiency develop a fatal encephalomyopathy. Kruse SE, etal., Cell Metab. 2008 Apr;7(4):312-20.
6. Proteomic and Metabolomic Analyses of Mitochondrial Complex I-deficient Mouse Model Generated by Spontaneous B2 Short Interspersed Nuclear Element (SINE) Insertion into NADH Dehydrogenase (Ubiquinone) Fe-S Protein 4 (Ndufs4) Gene. Leong DW, etal., J Biol Chem. 2012 Jun 8;287(24):20652-63. Epub 2012 Apr 25.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. Online Mendelian Inheritance in Man, OMIM (TM). Online Mendelian Inheritance in Man, OMIM (TM).
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. Fatal breathing dysfunction in a mouse model of Leigh syndrome. Quintana A, etal., J Clin Invest. 2012 Jul;122(7):2359-68. doi: 10.1172/JCI62923. Epub 2012 Jun 1.
11. Complex I deficiency due to loss of Ndufs4 in the brain results in progressive encephalopathy resembling Leigh syndrome. Quintana A, etal., Proc Natl Acad Sci U S A. 2010 Jun 15;107(24):10996-1001. doi: 10.1073/pnas.1006214107. Epub 2010 Jun 1.
12. Control of oxygen free radical formation from mitochondrial complex I: roles for protein kinase A and pyruvate dehydrogenase kinase. Raha S, etal., Free Radic Biol Med. 2002 Mar 1;32(5):421-30.
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
Additional References at PubMed
PMID:10747996   PMID:11112787   PMID:11165261   PMID:11181577   PMID:12477932   PMID:12611891   PMID:14651853   PMID:14765537   PMID:15038602   PMID:15489334   PMID:16478720   PMID:16870178  
PMID:18614015   PMID:21700703   PMID:24154540   PMID:25652399   PMID:26316108   PMID:26363424   PMID:26437605   PMID:26712463   PMID:26824698   PMID:27626371   PMID:28327638   PMID:28916769  
PMID:29501746   PMID:30391276  


Genomics

Comparative Map Data
Ndufs4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8247,684,420 - 47,794,914 (-)NCBIGRCr8
mRatBN7.2245,951,327 - 46,061,829 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl245,951,313 - 46,061,846 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx253,055,093 - 53,165,153 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0251,113,456 - 51,223,515 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0245,988,050 - 46,102,968 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0246,372,488 - 46,476,162 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl246,372,518 - 46,476,203 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0265,403,197 - 65,515,243 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4245,839,236 - 46,479,619 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera241,712,356 - 41,822,320 (-)NCBICelera
Cytogenetic Map2q14NCBI
NDUFS4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38553,560,639 - 53,683,338 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl553,560,633 - 53,683,338 (+)EnsemblGRCh38hg38GRCh38
GRCh37552,856,469 - 52,979,168 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36552,892,242 - 53,014,925 (+)NCBINCBI36Build 36hg18NCBI36
Build 34552,892,241 - 53,014,924NCBI
Celera549,810,070 - 49,932,765 (+)NCBICelera
Cytogenetic Map5q11.2NCBI
HuRef549,829,192 - 49,951,782 (+)NCBIHuRef
CHM1_1552,859,382 - 52,982,064 (+)NCBICHM1_1
T2T-CHM13v2.0554,388,486 - 54,511,162 (+)NCBIT2T-CHM13v2.0
Ndufs4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913114,424,331 - 114,524,630 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13114,424,331 - 114,524,794 (-)EnsemblGRCm39 Ensembl
GRCm3813114,287,795 - 114,388,094 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13114,287,795 - 114,388,258 (-)EnsemblGRCm38mm10GRCm38
MGSCv3713115,078,003 - 115,178,302 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3613115,409,528 - 115,508,921 (-)NCBIMGSCv36mm8
Celera13118,620,039 - 118,721,271 (-)NCBICelera
Cytogenetic Map13D2.2NCBI
cM Map1364.12NCBI
Ndufs4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544613,764,907 - 13,864,824 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544613,764,907 - 13,864,824 (-)NCBIChiLan1.0ChiLan1.0
NDUFS4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2460,256,021 - 60,378,662 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1558,409,645 - 58,532,287 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0560,344,363 - 60,467,008 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1561,966,124 - 62,088,388 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl561,966,124 - 62,088,375 (-)Ensemblpanpan1.1panPan2
NDUFS4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1461,613,580 - 61,727,219 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl461,613,589 - 61,727,205 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha461,379,036 - 61,492,669 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0462,107,235 - 62,231,743 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1461,884,352 - 61,997,681 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0462,012,344 - 62,126,203 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0462,529,496 - 62,643,162 (-)NCBIUU_Cfam_GSD_1.0
Ndufs4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213204,892,598 - 204,995,733 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648013,827,743 - 13,932,238 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648013,829,093 - 13,932,202 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NDUFS4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1632,874,450 - 32,987,828 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11632,874,418 - 32,985,638 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21634,963,225 - 34,992,577 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NDUFS4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1449,851,012 - 49,967,533 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl449,851,014 - 49,967,590 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660821,152,990 - 1,272,340 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ndufs4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247595,630,522 - 5,733,928 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ndufs4
445 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:123
Count of miRNA genes:91
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000015217
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23502311780023117Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23064806575648065Rat
2293676Bmd19Bone mineral density QTL 1910.70.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)243162366111362592Rat
2293682Bmd24Bone mineral density QTL 248.90.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)243162366111362592Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)22997159351729300Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22490385374786777Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22715716072157160Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)240067944102785628Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
631208Bw1Body weight QTL15.09mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)24317101783575226Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22699957148268661Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1300155Bp174Blood pressure QTL 1744.09arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)24280460760653831Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22691781781754745Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
12879863Bp402Blood pressure QTL 4020.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24112578956532139Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23513484188029593Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat

Markers in Region
D2Rat15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2247,137,898 - 47,138,066 (+)MAPPERmRatBN7.2
Rnor_6.0247,783,949 - 47,784,116NCBIRnor6.0
Rnor_5.0266,171,293 - 66,171,460UniSTSRnor5.0
RGSC_v3.4246,251,939 - 46,252,106UniSTSRGSC3.4
RGSC_v3.4246,251,938 - 46,252,106RGDRGSC3.4
RGSC_v3.1246,180,171 - 46,180,339RGD
Celera242,872,931 - 42,873,098UniSTS
RH 3.4 Map2313.1RGD
RH 3.4 Map2313.1UniSTS
RH 2.0 Map2281.7RGD
SHRSP x BN Map218.4498RGD
FHH x ACI Map226.3399RGD
Cytogenetic Map2q14UniSTS
D2Wox5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2246,003,085 - 46,003,241 (+)MAPPERmRatBN7.2
Rnor_6.0246,417,758 - 46,417,913NCBIRnor6.0
Rnor_5.0265,454,139 - 65,454,294UniSTSRnor5.0
RGSC_v3.4246,421,047 - 46,421,203RGDRGSC3.4
RGSC_v3.4246,421,048 - 46,421,203UniSTSRGSC3.4
RGSC_v3.1246,349,281 - 46,349,436RGD
Celera241,763,828 - 41,763,983UniSTS
RH 3.4 Map2297.6UniSTS
RH 3.4 Map2297.6RGD
RH 2.0 Map2266.6RGD
Cytogenetic Map2q14UniSTS
D2Got31  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2246,003,130 - 46,003,253 (+)MAPPERmRatBN7.2
Rnor_6.0246,417,803 - 46,417,925NCBIRnor6.0
Rnor_5.0265,454,184 - 65,454,306UniSTSRnor5.0
RGSC_v3.4246,421,092 - 46,421,215RGDRGSC3.4
RGSC_v3.4246,421,093 - 46,421,215UniSTSRGSC3.4
RGSC_v3.1246,349,326 - 46,349,448RGD
Celera241,763,873 - 41,763,995UniSTS
RH 3.4 Map2293.7UniSTS
RH 3.4 Map2293.7RGD
RH 2.0 Map2276.8RGD
Cytogenetic Map2q14UniSTS
RH130277  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2246,797,854 - 46,798,034 (+)MAPPERmRatBN7.2
Rnor_6.0247,266,760 - 47,266,939NCBIRnor6.0
Rnor_5.0271,808,493 - 71,808,672UniSTSRnor5.0
RGSC_v3.4245,900,725 - 45,900,904UniSTSRGSC3.4
Celera242,545,598 - 42,545,777UniSTS
RH 3.4 Map2307.3UniSTS
Cytogenetic Map2q14UniSTS
Cytogenetic Map2q16-q21UniSTS
RH144339  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2245,979,157 - 45,979,260 (+)MAPPERmRatBN7.2
Rnor_6.0246,393,830 - 46,393,932NCBIRnor6.0
Rnor_5.0265,430,348 - 65,430,450UniSTSRnor5.0
RGSC_v3.4246,395,616 - 46,395,718UniSTSRGSC3.4
Celera241,739,872 - 41,739,974UniSTS
RH 3.4 Map2296.0UniSTS
Cytogenetic Map2q14UniSTS
D2Uwm4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2247,125,816 - 47,126,054 (+)MAPPERmRatBN7.2
Rnor_6.0247,771,865 - 47,772,104NCBIRnor6.0
Rnor_5.0266,159,209 - 66,159,448UniSTSRnor5.0
RGSC_v3.4246,239,857 - 46,240,094UniSTSRGSC3.4
Celera242,860,853 - 42,861,086UniSTS
Cytogenetic Map2q14UniSTS
BI302105  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2247,107,721 - 47,107,934 (+)MAPPERmRatBN7.2
Rnor_6.0247,753,770 - 47,753,982NCBIRnor6.0
Rnor_5.0266,141,114 - 66,141,326UniSTSRnor5.0
RGSC_v3.4246,220,376 - 46,220,588UniSTSRGSC3.4
Celera242,842,831 - 42,843,043UniSTS
RH 3.4 Map2307.9UniSTS
Cytogenetic Map2q14UniSTS
BE119953  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2247,231,083 - 47,231,306 (+)MAPPERmRatBN7.2
mRatBN7.21829,730,201 - 29,730,413 (+)MAPPERmRatBN7.2
Rnor_6.01831,032,769 - 31,032,980NCBIRnor6.0
Rnor_6.0247,876,688 - 47,876,910NCBIRnor6.0
Rnor_5.01830,724,159 - 30,724,370UniSTSRnor5.0
Rnor_5.0266,264,138 - 66,264,360UniSTSRnor5.0
RGSC_v3.4246,345,568 - 46,345,790UniSTSRGSC3.4
RGSC_v3.41830,816,539 - 30,816,750UniSTSRGSC3.4
Celera1829,374,164 - 29,374,375UniSTS
Celera242,965,202 - 42,965,424UniSTS
RH 3.4 Map18428.3UniSTS
Cytogenetic Map18p11UniSTS
Cytogenetic Map2q14UniSTS
AU049362  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2246,931,018 - 46,931,228 (+)MAPPERmRatBN7.2
Rnor_6.0247,399,288 - 47,399,497NCBIRnor6.0
Rnor_5.0271,941,021 - 71,941,230UniSTSRnor5.0
RGSC_v3.4246,035,770 - 46,035,979UniSTSRGSC3.4
Celera242,674,155 - 42,674,364UniSTS
Cytogenetic Map2q14UniSTS


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
Medium 21 141 227 147 69 147 36 45 250 115 145 57 24
Low
Below cutoff

Sequence


Ensembl Acc Id: ENSRNOT00000015217   ⟹   ENSRNOP00000015217
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl245,951,313 - 46,061,846 (-)Ensembl
Rnor_6.0 Ensembl246,372,518 - 46,476,203 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093889   ⟹   ENSRNOP00000076767
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl245,952,160 - 46,061,671 (-)Ensembl
RefSeq Acc Id: NM_001025146   ⟹   NP_001020317
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8247,684,420 - 47,794,914 (-)NCBI
mRatBN7.2245,951,327 - 46,061,829 (-)NCBI
Rnor_6.0246,372,488 - 46,476,162 (-)NCBI
Rnor_5.0265,403,197 - 65,515,243 (-)NCBI
RGSC_v3.4245,839,236 - 46,479,619 (-)RGD
Celera241,712,356 - 41,822,320 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001020317 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83729 (Get FASTA)   NCBI Sequence Viewer  
  AAI27459 (Get FASTA)   NCBI Sequence Viewer  
  EDM10379 (Get FASTA)   NCBI Sequence Viewer  
  EDM10380 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015217.3
  ENSRNOP00000076767.1
  ENSRNOP00055015785
  ENSRNOP00060019361
GenBank Protein Q5XIF3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001020317   ⟸   NM_001025146
- Peptide Label: precursor
- UniProtKB: A1L111 (UniProtKB/Swiss-Prot),   Q5XIF3 (UniProtKB/Swiss-Prot),   A6I5S1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000015217   ⟸   ENSRNOT00000015217
Ensembl Acc Id: ENSRNOP00000076767   ⟸   ENSRNOT00000093889

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIF3-F1-model_v2 AlphaFold Q5XIF3 1-175 view protein structure

Transcriptome

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

Promoters
RGD ID:13691146
Promoter ID:EPDNEW_R1671
Type:multiple initiation site
Name:Ndufs4_1
Description:NADH:ubiquinone oxidoreductase subunit S4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0246,476,179 - 46,476,239EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1594380 AgrOrtholog
BioCyc Gene G2FUF-54338 BioCyc
BioCyc Pathway PWY-3781 [aerobic respiration I (cytochrome c)] BioCyc
BioCyc Pathway Image PWY-3781 BioCyc
Ensembl Genes ENSRNOG00000011383 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055011511 UniProtKB/Swiss-Prot
  ENSRNOG00060014170 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015217.6 UniProtKB/Swiss-Prot
  ENSRNOT00000093889.1 UniProtKB/TrEMBL
  ENSRNOT00055019565 UniProtKB/Swiss-Prot
  ENSRNOT00060024259 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.160.190 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7191329 IMAGE-MGC_LOAD
  IMAGE:7193742 IMAGE-MGC_LOAD
InterPro NADH_UbQ_FeS_4_mit UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NDUFS4-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:499529 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:156516 IMAGE-MGC_LOAD
  MGC:94631 IMAGE-MGC_LOAD
NCBI Gene 499529 ENTREZGENE
PANTHER NADH DEHYDROGENASE [UBIQUINONE] IRON-SULFUR PROTEIN 4, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12219 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ETC_C1_NDUFA4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ndufs4 PhenoGen
RatGTEx ENSRNOG00000011383 RatGTEx
  ENSRNOG00055011511 RatGTEx
  ENSRNOG00060014170 RatGTEx
UniProt A0A8I5ZK55_RAT UniProtKB/TrEMBL
  A1L111 ENTREZGENE
  A6I5S1 ENTREZGENE, UniProtKB/TrEMBL
  A6I5S2_RAT UniProtKB/TrEMBL
  NDUS4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A1L111 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-26 Ndufs4  NADH:ubiquinone oxidoreductase subunit S4  Ndufs4  NADH dehydrogenase (ubiquinone) Fe-S protein 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Ndufs4  NADH dehydrogenase (ubiquinone) Fe-S protein 4  Ndufs4  NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 Ndufs4  NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase)      Symbol and Name status set to provisional 70820 PROVISIONAL