Tfam (transcription factor A, mitochondrial) - Rat Genome Database

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Gene: Tfam (transcription factor A, mitochondrial) Mus musculus
Analyze
Symbol: Tfam
Name: transcription factor A, mitochondrial
RGD ID: 733567
MGI Page MGI
Description: Enables mitochondrial promoter sequence-specific DNA binding activity. Involved in mitochondrial transcription. Acts upstream of or within mitochondrial respiratory chain complex assembly. Located in mitochondrial nucleoid. Is active in mitochondrion. Is expressed in several structures, including brain; branchial arch; early conceptus; genitourinary system; and hemolymphoid system. Used to study Kearns-Sayre syndrome and Parkinson's disease. Human ortholog(s) of this gene implicated in Alzheimer's disease; Huntington's disease; Parkinson's disease; amyotrophic lateral sclerosis; and mitochondrial DNA depletion syndrome 15. Orthologous to human TFAM (transcription factor A, mitochondrial).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: AI661103; Hmgt; Hmgts; mtTF; mtTFA; testis-specific high mobility group protein; testis-specific HMG-box protein m-tsHMG; TS-HMG; tsHM; tsHMG
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391071,061,298 - 71,074,157 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1071,061,294 - 71,074,110 (-)EnsemblGRCm39 Ensembl
GRCm381071,225,468 - 71,238,328 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1071,225,464 - 71,238,280 (-)EnsemblGRCm38mm10GRCm38
MGSCv371070,688,225 - 70,700,792 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361070,620,777 - 70,633,344 (-)NCBIMGSCv36mm8
Celera1072,300,895 - 72,313,462 (-)NCBICelera
Cytogenetic Map10B5.3NCBI
cM Map1036.83NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(3,4-dihydroxyphenyl)acetic acid  (EXP)
(R)-lipoic acid  (EXP)
(R)-noradrenaline  (ISO)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dinitrotoluene  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-methyl-4-oxido-2-pyrazin-4-iumcarboxylic acid  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (ISO)
7,12-dimethyltetraphene  (EXP)
8-bromo-3',5'-cyclic GMP  (ISO)
acetamide  (ISO)
acetylsalicylic acid  (EXP)
aconitine  (ISO)
acrolein  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-D-galactose  (ISO)
AM-251  (EXP)
ammonium chloride  (ISO)
angiotensin II  (ISO)
antimycin A  (EXP)
arachidonyl-2'-chloroethylamide  (EXP)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
aspartame  (EXP)
atorvastatin calcium  (EXP,ISO)
atrazine  (ISO)
auramine O  (ISO)
baicalin  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (EXP)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
calcium dihydroxide  (EXP)
calycosin  (ISO)
carbon monoxide  (EXP,ISO)
CGP 52608  (ISO)
chloramphenicol  (ISO)
cisplatin  (EXP)
clenbuterol  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (EXP,ISO)
corosolic acid  (ISO)
curcumin  (ISO)
D-glucose  (ISO)
DDE  (ISO)
dexamethasone  (EXP)
Di-n-octyl phthalate  (ISO)
Dibutyl phosphate  (ISO)
dicrotophos  (ISO)
dimethyl fumarate  (EXP)
dioxygen  (EXP,ISO)
dopamine  (EXP)
dorsomorphin  (EXP)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
ellagic acid  (ISO)
enalapril  (ISO)
enzyme inhibitor  (ISO)
Erythropoietin  (ISO)
ethanol  (EXP)
ethidium  (ISO)
etoposide  (ISO)
finasteride  (ISO)
flavonoids  (ISO)
flutamide  (ISO)
folic acid  (EXP)
formaldehyde  (ISO)
formononetin  (ISO)
FR900359  (ISO)
fructose  (ISO)
fulvestrant  (ISO)
Fusaric acid  (ISO)
galactose  (ISO)
gamma-hexachlorocyclohexane  (ISO)
Genipin  (EXP)
gentamycin  (ISO)
Gingerenone A  (EXP)
glucose  (ISO)
hexadecanoic acid  (EXP)
homovanillic acid  (EXP)
hydrogen peroxide  (ISO)
hydroxytyrosol  (ISO)
Ile(5)-angiotensin II  (ISO)
inositol  (ISO)
kaempferol  (ISO)
Licarin A  (EXP)
lipoic acid  (EXP)
lipopolysaccharide  (ISO)
LY294002  (ISO)
melatonin  (EXP,ISO)
meldonium  (ISO)
Mesaconitine  (ISO)
metformin  (ISO)
methylmercury chloride  (EXP,ISO)
mono(2-ethylhexyl) phthalate  (EXP)
monocrotophos  (ISO)
monosodium L-glutamate  (EXP)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
nebivolol  (EXP)
nefazodone  (ISO)
nickel atom  (EXP)
nickel dichloride  (EXP)
nimesulide  (ISO)
nitrites  (ISO)
ochratoxin A  (ISO)
oleic acid  (EXP)
oxaloacetic acid  (ISO)
oxidopamine  (EXP)
oxybenzone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (ISO)
Phytolaccoside E  (ISO)
picoxystrobin  (ISO)
pioglitazone  (ISO)
pirinixic acid  (EXP)
piroxicam  (ISO)
poly(guanylic acid)  (ISO)
potassium chloride  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propionic acid  (ISO)
pyrroloquinoline quinone  (EXP,ISO)
pyruvic acid  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
rotenone  (EXP,ISO)
salvianolic acid B  (EXP)
SB 431542  (ISO)
selenium atom  (ISO)
silicon atom  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium benzoate  (ISO)
sodium dichromate  (EXP,ISO)
sodium fluoride  (EXP)
sodium hydrogensulfite  (ISO)
streptozocin  (EXP)
sulforaphane  (ISO)
sulfur dioxide  (ISO)
sunitinib  (ISO)
T-2 toxin  (EXP,ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thiram  (ISO)
titanium dioxide  (EXP)
triphenyl phosphate  (ISO)
Triptolide  (EXP,ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
undecane  (ISO)
uranium atom  (ISO)
valdecoxib  (ISO)
valproic acid  (EXP,ISO)
zalcitabine  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal axonal transport  (IAGP)
abnormal blood flow velocity  (IAGP)
abnormal cardiovascular system physiology  (IAGP)
abnormal circulating insulin level  (IAGP)
abnormal colon morphology  (IAGP)
abnormal dopaminergic neuron morphology  (IAGP)
abnormal enteric neuron morphology  (IAGP)
abnormal enzyme/coenzyme level  (IAGP)
abnormal hair cycle catagen phase  (IAGP)
abnormal heart development  (IAGP)
abnormal keratinocyte differentiation  (IAGP)
abnormal keratinocyte physiology  (IAGP)
abnormal limb posture  (IAGP)
abnormal locomotor behavior  (IAGP)
abnormal mitochondrial ATP synthesis coupled electron transport  (IAGP)
abnormal mitochondrial morphology  (IAGP)
abnormal mitochondrial physiology  (IAGP)
abnormal nervous system physiology  (IAGP)
abnormal neuron morphology  (IAGP)
abnormal PNS glial cell morphology  (IAGP)
abnormal redox activity  (IAGP)
abnormal respiratory electron transport chain  (IAGP)
abnormal small intestine morphology  (IAGP)
abnormal somite development  (IAGP)
absent optic nerve  (IAGP)
absent pancreatic beta cells  (IAGP)
absent sebaceous gland  (IAGP)
axon degeneration  (IAGP)
bradykinesia  (IAGP)
decreased body size  (IAGP)
decreased dopamine level  (IAGP)
decreased exploration in new environment  (IAGP)
decreased hair follicle number  (IAGP)
decreased insulin secretion  (IAGP)
decreased locomotor activity  (IAGP)
decreased mitochondrial DNA content  (IAGP)
decreased neuron mitochondrial DNA content  (IAGP)
decreased neuron number  (IAGP)
decreased subcutaneous adipose tissue amount  (IAGP)
dilated cardiomyopathy  (IAGP)
dilated heart atrium  (IAGP)
dilated heart left ventricle  (IAGP)
dilated heart right ventricle  (IAGP)
disorganized mitochondrial cristae  (IAGP)
distended abdomen  (IAGP)
embryonic lethality during organogenesis, complete penetrance  (IAGP)
enlarged heart  (IAGP)
gliosis  (IAGP)
impaired skeletal muscle contractility  (IAGP)
increased apoptosis  (IAGP)
increased cardiomyocyte apoptosis  (IAGP)
increased glutathione peroxidase activity  (IAGP)
increased heart weight  (IAGP)
increased insulin sensitivity  (IAGP)
increased keratinocyte proliferation  (IAGP)
increased mitochondrial size  (IAGP)
increased physiological sensitivity to xenobiotic  (IAGP)
increased skeletal muscle fiber size  (IAGP)
loss of dopaminergic neurons  (IAGP)
muscle hypertonia  (IAGP)
muscle spasm  (IAGP)
neonatal lethality, incomplete penetrance  (IAGP)
neurodegeneration  (IAGP)
neuron degeneration  (IAGP)
neuronal intranuclear inclusions  (IAGP)
postnatal growth retardation  (IAGP)
postnatal lethality, complete penetrance  (IAGP)
premature death  (IAGP)
progressive hair loss  (IAGP)
slow postnatal weight gain  (IAGP)
thick epidermis  (IAGP)
tremors  (IAGP)
weight loss  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Mitochondrial transcription factor A (TFAM) gene variation in Parkinson's disease. Alvarez V, etal., Neurosci Lett. 2008 Feb 13;432(1):79-82. Epub 2007 Dec 15.
2. Association study of two genetic variants in mitochondrial transcription factor A (TFAM) in Alzheimer's and Parkinson's disease. Belin AC, etal., Neurosci Lett. 2007 Jun 15;420(3):257-62. Epub 2007 May 10.
3. Impairment of PGC-1alpha expression, neuropathology and hepatic steatosis in a transgenic mouse model of Huntington's disease following chronic energy deprivation. Chaturvedi RK, etal., Hum Mol Genet. 2010 Aug 15;19(16):3190-205. Epub 2010 Jun 7.
4. Mitochondrial transcription factor A is a proinflammatory mediator in hemorrhagic shock. Chaung WW, etal., Int J Mol Med. 2012 Jul;30(1):199-203. doi: 10.3892/ijmm.2012.959. Epub 2012 Apr 2.
5. Dysregulation of mitochondrial dynamics and the muscle transcriptome in ICU patients suffering from sepsis induced multiple organ failure. Fredriksson K, etal., PLoS One. 2008;3(11):e3686. Epub 2008 Nov 10.
6. Mitochondrial transcription factor A variants and the risk of Parkinson's disease. Gaweda-Walerych K, etal., Neurosci Lett. 2010 Jan 18;469(1):24-9. doi: 10.1016/j.neulet.2009.11.037. Epub 2009 Nov 17.
7. PARK2 variability in Polish Parkinson's disease patients--interaction with mitochondrial haplogroups. Gaweda-Walerych K, etal., Parkinsonism Relat Disord. 2012 Jun;18(5):520-4. Epub 2012 Feb 22.
8. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
9. Impaired mitochondrial biogenesis in hippocampi of rats with chronic seizures. Han Y, etal., Neuroscience. 2011 Oct 27;194:234-40. Epub 2011 Aug 6.
10. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
11. Genetic modification of survival in tissue-specific knockout mice with mitochondrial cardiomyopathy. Li H, etal., Proc Natl Acad Sci U S A. 2000 Mar 28;97(7):3467-72.
12. The impact of mitochondrial and nuclear DNA variants on late-onset Alzheimer's disease risk. Maruszak A, etal., J Alzheimers Dis. 2011;27(1):197-210. doi: 10.3233/JAD-2011-110710.
13. MGDs mouse GO annotations MGD data from the GO Consortium
14. MGD IEA MGD IEA
15. Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Mootha VK, etal., Cell 2003 Nov 26;115(5):629-40.
16. Effect of mitochondrial transcription factor a overexpression on motor neurons in amyotrophic lateral sclerosis model mice. Morimoto N, etal., J Neurosci Res. 2012 Jun;90(6):1200-8. doi: 10.1002/jnr.23000. Epub 2012 Feb 22.
17. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
18. Impact of exercise on mitochondrial transcription factor expression and damage in the striatum of a chronic mouse model of Parkinson's disease. Patki G and Lau YS, Neurosci Lett. 2011 Nov 21;505(3):268-72. Epub 2011 Oct 21.
19. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
20. Downregulation of Tfam and mtDNA copy number during mammalian spermatogenesis. Rantanen A, etal., Mamm Genome 2001 Oct;12(10):787-92.
21. Peroxisome proliferator-activated receptor expression is reduced in skeletal muscle in COPD. Remels AH, etal., Eur Respir J. 2007 Aug;30(2):245-52. Epub 2007 Apr 25.
22. Mouse MP Annotation Import Pipeline RGD automated import pipeline
23. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
24. Maternal obesity promotes a proinflammatory signature in rat uterus and blastocyst. Shankar K, etal., Endocrinology. 2011 Nov;152(11):4158-70. Epub 2011 Aug 23.
25. PGC-1alpha downstream transcription factors NRF-1 and TFAM are genetic modifiers of Huntington disease. Taherzadeh-Fard E, etal., Mol Neurodegener. 2011 May 19;6(1):32.
26. 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.
27. Rapidly increased neuronal mitochondrial biogenesis after hypoxic-ischemic brain injury. Yin W, etal., Stroke. 2008 Nov;39(11):3057-63. Epub 2008 Aug 21.
28. Exercise induces mitochondrial biogenesis after brain ischemia in rats. Zhang Q, etal., Neuroscience. 2012 Mar 15;205:10-7. Epub 2012 Jan 8.
Additional References at PubMed
PMID:2035027   PMID:2628167   PMID:8321234   PMID:8673128   PMID:9060414   PMID:9500544   PMID:9570966   PMID:9653653   PMID:9916807   PMID:10341094   PMID:10349636   PMID:10922068  
PMID:11042159   PMID:11062475   PMID:11076861   PMID:11171100   PMID:11259653   PMID:11588181   PMID:11940593   PMID:12070272   PMID:12206900   PMID:12417746   PMID:12477932   PMID:12904583  
PMID:14610273   PMID:14978272   PMID:15016765   PMID:15489334   PMID:15526033   PMID:15545607   PMID:15757973   PMID:15782199   PMID:15895466   PMID:16043643   PMID:16141072   PMID:16141073  
PMID:16296893   PMID:16325481   PMID:16439064   PMID:16996481   PMID:17003040   PMID:17227870   PMID:17581862   PMID:17609113   PMID:17827403   PMID:18245781   PMID:18287559   PMID:18614015  
PMID:18614564   PMID:18790059   PMID:18945718   PMID:19805233   PMID:20002202   PMID:20022934   PMID:20059953   PMID:20071537   PMID:20102525   PMID:20130269   PMID:20412781   PMID:20421486  
PMID:20566479   PMID:20656029   PMID:20686481   PMID:20932939   PMID:21135502   PMID:21212186   PMID:21233488   PMID:21267068   PMID:21677750   PMID:21752989   PMID:21768369   PMID:21780252  
PMID:21873635   PMID:22056359   PMID:22110743   PMID:22251459   PMID:22474357   PMID:22904065   PMID:22904094   PMID:22961549   PMID:22988253   PMID:22988430   PMID:23047984   PMID:23168219  
PMID:23274913   PMID:23321074   PMID:23349485   PMID:23386745   PMID:23393161   PMID:23473319   PMID:23499423   PMID:23690562   PMID:23951313   PMID:23977020   PMID:24150248   PMID:24486705  
PMID:24703694   PMID:24952961   PMID:25005176   PMID:25171792   PMID:25371971   PMID:25642965   PMID:25752644   PMID:25918232   PMID:25944881   PMID:26086365   PMID:26182383   PMID:26299452  
PMID:26305956   PMID:26359992   PMID:26374844   PMID:26407721   PMID:26545237   PMID:27003179   PMID:27053209   PMID:27068470   PMID:27124299   PMID:27166947   PMID:27448789   PMID:27659966  
PMID:27703142   PMID:27760051   PMID:28111078   PMID:28122051   PMID:28130547   PMID:28375739   PMID:28376279   PMID:28378742   PMID:28461218   PMID:28465321   PMID:28466093   PMID:28474670  
PMID:28504706   PMID:28504707   PMID:28595911   PMID:28768180   PMID:28800400   PMID:28846746   PMID:28867657   PMID:28902841   PMID:28962857   PMID:29021295   PMID:29132502   PMID:29199018  
PMID:29222160   PMID:29514069   PMID:29615705   PMID:29684311   PMID:29844370   PMID:29925003   PMID:30196744   PMID:30226866   PMID:30318339   PMID:30333037   PMID:30353496   PMID:30440089  
PMID:30553768   PMID:30659235   PMID:30853890   PMID:30914652   PMID:30933310   PMID:30949583   PMID:31042480   PMID:31105007   PMID:31226324   PMID:31269437   PMID:31430762   PMID:31474566  
PMID:31495880   PMID:31505196   PMID:31835787   PMID:31890743   PMID:32005765   PMID:32057291   PMID:32192190   PMID:32244769   PMID:32325033   PMID:32439659   PMID:32521756   PMID:32525278  
PMID:32564285   PMID:32579581   PMID:32923630   PMID:32971400   PMID:33159962   PMID:33246070   PMID:33264655   PMID:33358867   PMID:33709773   PMID:33760663   PMID:34003544   PMID:34294718  
PMID:34312668   PMID:34320035   PMID:34321999   PMID:34378772   PMID:34462320   PMID:34551310   PMID:34921782   PMID:35081489   PMID:35099001   PMID:35165165   PMID:35237793   PMID:35293971  
PMID:35384838   PMID:35451091   PMID:35589699   PMID:35593053   PMID:35947192   PMID:36049540   PMID:36189989   PMID:36433959   PMID:36479146   PMID:36496409   PMID:36623805   PMID:36693621  
PMID:36738738   PMID:36858460   PMID:36902115   PMID:36959514   PMID:37095377   PMID:37142655   PMID:37298383   PMID:37352855   PMID:37872380   PMID:37891230   PMID:38093274   PMID:38272857  
PMID:38449738   PMID:38797339  


Genomics

Comparative Map Data
Tfam
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391071,061,298 - 71,074,157 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1071,061,294 - 71,074,110 (-)EnsemblGRCm39 Ensembl
GRCm381071,225,468 - 71,238,328 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1071,225,464 - 71,238,280 (-)EnsemblGRCm38mm10GRCm38
MGSCv371070,688,225 - 70,700,792 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361070,620,777 - 70,633,344 (-)NCBIMGSCv36mm8
Celera1072,300,895 - 72,313,462 (-)NCBICelera
Cytogenetic Map10B5.3NCBI
cM Map1036.83NCBI
TFAM
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381058,385,410 - 58,399,220 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1058,385,345 - 58,399,220 (+)EnsemblGRCh38hg38GRCh38
GRCh371060,145,170 - 60,158,980 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361059,815,182 - 59,825,903 (+)NCBINCBI36Build 36hg18NCBI36
Celera1053,410,112 - 53,420,833 (+)NCBICelera
Cytogenetic Map10q21.1NCBI
HuRef1054,133,767 - 54,148,729 (+)NCBIHuRef
CHM1_11060,426,687 - 60,440,776 (+)NCBICHM1_1
T2T-CHM13v2.01059,239,514 - 59,253,326 (+)NCBIT2T-CHM13v2.0
Tfam
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82017,355,373 - 17,367,422 (+)NCBIGRCr8
mRatBN7.22017,356,243 - 17,368,293 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2017,356,197 - 17,368,292 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2018,082,918 - 18,094,966 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02017,437,916 - 17,449,964 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02017,910,581 - 17,922,629 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02018,594,057 - 18,606,106 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2018,594,037 - 18,606,151 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02020,760,402 - 20,772,301 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42018,100,629 - 18,112,682 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12018,114,428 - 18,126,482 (+)NCBI
Celera2018,754,951 - 18,766,964 (+)NCBICelera
Cytogenetic Map20p11NCBI
Tfam
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542512,106,877 - 12,120,782 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542512,106,506 - 12,121,625 (+)NCBIChiLan1.0ChiLan1.0
TFAM
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2870,594,983 - 70,606,152 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11070,600,391 - 70,611,474 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01054,917,578 - 54,934,124 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11057,137,911 - 57,152,102 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1057,138,437 - 57,147,972 (+)Ensemblpanpan1.1panPan2
TFAM
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1410,585,320 - 10,600,664 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl410,585,480 - 10,598,058 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha410,777,843 - 10,794,098 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0410,841,889 - 10,857,973 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl410,842,146 - 10,857,106 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1410,826,103 - 10,842,176 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0410,945,723 - 10,961,973 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0411,254,972 - 11,271,059 (+)NCBIUU_Cfam_GSD_1.0
Tfam
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721370,510,063 - 70,519,044 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366144,596,617 - 4,605,104 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366144,595,973 - 4,605,040 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TFAM
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1492,259,403 - 92,279,731 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11492,261,713 - 92,279,731 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214100,777,168 - 100,778,350 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TFAM
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1972,900,665 - 72,914,634 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl972,904,637 - 72,914,397 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604833,803,050 - 33,817,151 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tfam
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247915,179,195 - 5,198,611 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247915,183,276 - 5,198,986 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tfam
572 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1323
Count of miRNA genes:646
Interacting mature miRNAs:802
Transcripts:ENSMUST00000092430, ENSMUST00000105432, ENSMUST00000121685, ENSMUST00000145220, ENSMUST00000152505
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302035Lmb4_mlupus in MRL and B6 F2 cross (mouse)Not determined106684818792258673Mouse
1300882Ath17_matherosclerosis 17 (mouse)Not determined105109149085091639Mouse
39128215Lwq17_mliver weight QTL 17 (mouse)101270405184079784Mouse
26884447Sklq9_mskull length QTL 9, 10 week (mouse)1067335830111735905Mouse
4141943W6q6_mweight 6 weeks QTL 6 (mouse)Not determined1270405184079784Mouse
1301787Bsc1_mbrain size control 1 (mouse)Not determined105851696992517096Mouse
27226772Tibl13_mtibia length 13, 10 week (mouse)1018875748129635869Mouse
1357656Hrtq3_mheart weight QTL 3 (mouse)Not determined101270405184079784Mouse
14746991Manh68_mmandible shape 68 (mouse)105228049786280497Mouse
26884426Cvht1_mcranial vault height 1, 5 week (mouse)1024675898121035905Mouse
10045641Jckm3_mjuvenile cystic kidney modifier 3 (mouse)Not determined104984818783848412Mouse
26884424Zlq9_mzygomatic length QTL 9, 16 week (mouse)1063935779115935905Mouse
4142380W3q11_mweight 3 weeks QTL 11 (mouse)Not determined1270405184079784Mouse
27226764Tibl19_mtibia length 19, 16 week (mouse)1039175996129635869Mouse
26884430Zlq5_mzygomatic length QTL 5, 10 week (mouse)1067835830124835905Mouse
1357825Kidpq2_mkidney weight percentage QTL 2 (mouse)Not determined101270405184079784Mouse
1302150Bbaa18_mB.burgdorferi-associated arthritis 18 (mouse)Not determined104933801283338157Mouse
4142313Angvq1_mangiogenesis by VEGF QTL 1 (mouse)Not determined4672040382491121Mouse
1301380Cia8_mcollagen induced arthritis QTL 8 (mouse)Not determined105149340082491121Mouse
1301386Sysbp1_msystolic blood pressure 1 (mouse)Not determined101010826587401095Mouse
1301966Lifespan2_mlife span 2 (mouse)Not determined104984822283848397Mouse
1302067Scc9_mcolon tumor susceptibility 9 (mouse)Not determined1018259333125575232Mouse
26884411Bzwq8_mbi-zygomatic width QTL 8, 10 week (mouse)1044876096115935905Mouse
1300597Skull14_mskull morphology 14 (mouse)Not determined104984818783848412Mouse
4142169Pbwg16_mpostnatal body weight growth 16 (mouse)Not determined104984818783848412Mouse
1300533Aem3_manti-erythrocyte autoantibody modifier 3 (mouse)Not determined106549093899491121Mouse
26884403Cvht8_mcranial vault height 8, 16 week (mouse)102287589991035862Mouse
26884407Bzwq14_mbi-zygomatic width QTL 14, 16 wee (mouse)1045476096120635905Mouse
1301502Eae17_msusceptibility to experimental allergic encephalomyelitis 17 (mouse)Not determined105109149085091639Mouse
26884405Huml2_mhumerus length 2, 5 week (mouse)1069735830130430862Mouse
4141070Ltgq1_mliver triglyceride QTL 1 (mouse)Not determined4123732675237326Mouse
1558757Eae34_mexperimental allergic encephalomyelitis susceptibility 34 (mouse)Not determined1021408154114217230Mouse
1357740Obsty3_mobesity 3 (mouse)Not determined108235478116190980Mouse
26884450Sklq15_mskull length QTL 15, 16 week (mouse)1059335822122335905Mouse
13208560Wght9_mweight 9 (mouse)1059835822120835905Mouse
27095911Pglq15_mpelvic girdle length QTL 15, 16 week (mouse)1039175996129635869Mouse
1301737Insq9_minsulin QTL 9 (mouse)Not determined106549093899491121Mouse
4141956Egq7_mearly growth QTL 7 (mouse)Not determined1270405184079784Mouse
1357864Scfpq1_msubcutaneous fat pad percentage QTL 1 (mouse)Not determined101270405184079784Mouse
1357737Hpcr2_mhepatocarcinogen resistance 2 (mouse)Not determined104984822283848397Mouse
4142272W10q5_mweight 10 weeks QTL 5 (mouse)Not determined1270405184079784Mouse
1302060El3_mepilepsy 3 (mouse)Not determined106549093899491121Mouse

Markers in Region
AI661103  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381071,225,495 - 71,225,621UniSTSGRCm38
MGSCv371070,688,243 - 70,688,369UniSTSGRCm37
Celera1072,300,913 - 72,301,039UniSTS
Cytogenetic Map10B5UniSTS
cM Map1038.0UniSTS
Whitehead/MRC_RH10812.4UniSTS
Tfam  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm382157,187,082 - 157,187,251UniSTSGRCm38
MGSCv372157,012,818 - 157,012,987UniSTSGRCm37
Celera2163,120,877 - 163,121,046UniSTS
Cytogenetic Map10B5UniSTS
Cytogenetic Map2H1UniSTS
cM Map1038.0UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_009360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017313918 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC079680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC153509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK004857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK017974 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK032682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK050446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK161747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK163563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167348 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167777 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK169808 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK178048 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK189203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK208135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK218895 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC001987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC083084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466553 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L07107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U57939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U63712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U63858 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U63859 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U63860 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000092430   ⟹   ENSMUSP00000090086
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1071,061,294 - 71,074,110 (-)Ensembl
GRCm38.p6 Ensembl1071,225,464 - 71,238,280 (-)Ensembl
Ensembl Acc Id: ENSMUST00000105432   ⟹   ENSMUSP00000101072
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1071,064,287 - 71,074,110 (-)Ensembl
GRCm38.p6 Ensembl1071,228,457 - 71,238,280 (-)Ensembl
Ensembl Acc Id: ENSMUST00000121685   ⟹   ENSMUSP00000113581
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1071,064,342 - 71,073,508 (-)Ensembl
GRCm38.p6 Ensembl1071,228,512 - 71,237,678 (-)Ensembl
Ensembl Acc Id: ENSMUST00000145220
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1071,064,276 - 71,071,151 (-)Ensembl
GRCm38.p6 Ensembl1071,228,446 - 71,235,321 (-)Ensembl
Ensembl Acc Id: ENSMUST00000152505   ⟹   ENSMUSP00000120871
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1071,064,946 - 71,072,872 (-)Ensembl
GRCm38.p6 Ensembl1071,229,116 - 71,237,042 (-)Ensembl
RefSeq Acc Id: NM_009360   ⟹   NP_033386
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391071,061,307 - 71,073,874 (-)NCBI
GRCm381071,225,477 - 71,238,044 (-)NCBI
MGSCv371070,688,225 - 70,700,792 (-)RGD
Celera1072,300,895 - 72,313,462 (-)RGD
cM Map10 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_017313918   ⟹   XP_017169407
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391071,061,298 - 71,074,157 (-)NCBI
GRCm381071,225,468 - 71,238,328 (-)NCBI
Sequence:
RefSeq Acc Id: NP_033386   ⟸   NM_009360
- Peptide Label: precursor
- UniProtKB: Q543I8 (UniProtKB/Swiss-Prot),   P97906 (UniProtKB/Swiss-Prot),   P97894 (UniProtKB/Swiss-Prot),   Q9DBM9 (UniProtKB/Swiss-Prot),   P40630 (UniProtKB/Swiss-Prot),   Q3TSW9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017169407   ⟸   XM_017313918
- Peptide Label: isoform X1
- UniProtKB: A0A0R4J1N9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000101072   ⟸   ENSMUST00000105432
Ensembl Acc Id: ENSMUSP00000120871   ⟸   ENSMUST00000152505
Ensembl Acc Id: ENSMUSP00000090086   ⟸   ENSMUST00000092430
Ensembl Acc Id: ENSMUSP00000113581   ⟸   ENSMUST00000121685
Protein Domains
HMG box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P40630-F1-model_v2 AlphaFold P40630 1-243 view protein structure

Promoters
RGD ID:6820004
Promoter ID:MM_KWN:4491
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000121685,   OTTMUST00000076898,   OTTMUST00000076902,   UC007FON.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361070,700,504 - 70,701,004 (-)MPROMDB
RGD ID:8672266
Promoter ID:EPDNEW_M14163
Type:initiation region
Name:Tfam_1
Description:Mus musculus transcription factor A, mitochondrial , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381071,238,044 - 71,238,104EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:107810 AgrOrtholog
Ensembl Genes ENSMUSG00000003923 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000092430 ENTREZGENE
  ENSMUST00000092430.11 UniProtKB/Swiss-Prot
  ENSMUST00000105432 ENTREZGENE
  ENSMUST00000105432.10 UniProtKB/Swiss-Prot
  ENSMUST00000121685.8 UniProtKB/TrEMBL
  ENSMUST00000152505.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMGB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:21780 UniProtKB/Swiss-Prot
MGD MGI:107810 ENTREZGENE
NCBI Gene 21780 ENTREZGENE
PANTHER HIGH MOBILITY GROUP PROTEIN DSP1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR A, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_box_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tfam PhenoGen
PROSITE HMG_BOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HMG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0R4J1N9 ENTREZGENE, UniProtKB/TrEMBL
  D3Z0F3_MOUSE UniProtKB/TrEMBL
  P40630 ENTREZGENE
  P97894 ENTREZGENE
  P97906 ENTREZGENE
  P97907_MOUSE UniProtKB/TrEMBL
  Q3TSW9 ENTREZGENE, UniProtKB/TrEMBL
  Q543I8 ENTREZGENE
  Q9DBM9 ENTREZGENE
  TFAM_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary P97894 UniProtKB/Swiss-Prot
  P97906 UniProtKB/Swiss-Prot
  Q543I8 UniProtKB/Swiss-Prot
  Q9DBM9 UniProtKB/Swiss-Prot