Metabolic Modeling Tutorial
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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
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MetaCyc Organism: Mus musculus

Synonyms: transgenic mice, nude mice, mouse, mice C57BL/6xCBA/CaJ hybrid, house mouse, Mus sp. 129SV, Mus muscaris, LK3 transgenic mice

Rank: species

Taxonomic lineage: cellular organisms , Eukaryota , Opisthokonta , Metazoa , Eumetazoa , Bilateria , Deuterostomia , Chordata , Craniata , Vertebrata , Gnathostomata , Teleostomi , Euteleostomi , Sarcopterygii , Dipnotetrapodomorpha , Tetrapoda , Amniota , Mammalia , Theria , Eutheria , Boreoeutheria , Euarchontoglires , Glires , Rodentia , Sciurognathi , Muroidea , Muridae , Murinae , Mus , Mus

Direct sub-taxa of Mus musculus: Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus, Mus musculus

Unification Links: NCBI-Taxonomy:10090


Pathways present in Mus musculus or one of its sub-taxa (64).
These pathways were observed experimentally in this taxon or one of its sub-taxa:
2-oxoglutarate decarboxylation to succinyl-CoA ,
2-oxoisovalerate decarboxylation to isobutanoyl-CoA ,
acetone degradation III (to propane-1,2-diol) ,
acetone degradation I (to methylglyoxal) ,
arsenate detoxification I (glutaredoxin) ,
ascorbate recycling (cytosolic) ,
bile acid biosynthesis, neutral pathway ,
ceramide de novo biosynthesis ,
citrulline biosynthesis ,
CMP-N-acetylneuraminate biosynthesis I (eukaryotes) ,
CMP-N-glycoloylneuraminate biosynthesis ,
D-glucuronate degradation I ,
eumelanin biosynthesis ,
fatty acid β-oxidation VI (peroxisome) ,
guanosine nucleotides degradation III ,
heme biosynthesis I (aerobic) ,
heme degradation ,
histamine biosynthesis ,
L-ascorbate biosynthesis IV ,
L-carnitine biosynthesis ,
L-cysteine degradation III ,
lysine degradation II (mammalian) ,
melatonin degradation I ,
melatonin degradation II ,
melatonin degradation III ,
methionine salvage cycle III (animals) ,
mitochondrial L-carnitine shuttle ,
phosphatidylcholine biosynthesis I ,
phosphatidylcholine biosynthesis V ,
protein citrullination ,
purine nucleotides degradation II (aerobic) ,
putrescine degradation III ,
pyrimidine deoxyribonucleotides dephosphorylation ,
selenocysteine biosynthesis II (archaea and eukaryotes) ,
serotonin and melatonin biosynthesis ,
serotonin degradation ,
S-methyl-5-thio-α-D-ribose 1-phosphate degradation ,
spermine and spermidine degradation I ,
sphingolipid biosynthesis (mammals) ,
sphingomyelin metabolism ,
sphingosine and sphingosine-1-phosphate metabolism ,
stearate biosynthesis I (animals) ,
sulfite oxidation IV ,
superpathway of lysine degradation ,
superpathway of melatonin degradation ,
superpathway of methionine salvage and degradation ,
superpathway of sialic acids and CMP-sialic acids biosynthesis ,
taurine biosynthesis ,
thyroid hormone biosynthesis ,
thyroid hormone metabolism II (via conjugation and/or degradation) ,
thyroid hormone metabolism I (via deiodination) ,
thyronamine and iodothyronamine metabolism ,
trans-4-hydroxy-L-proline degradation I ,
tryptophan degradation III (eukaryotic) ,
tryptophan degradation to 2-amino-3-carboxymuconate semialdehyde ,
tryptophan degradation XI (mammalian, via kynurenine) ,
tryptophan degradation X (mammalian, via tryptamine) ,
ubiquinol-9 biosynthesis (eukaryotic) ,
UDP-α-D-glucuronate biosynthesis (from UDP-glucose) ,
UDP-D-xylose biosynthesis ,
UDP-N-acetyl-D-glucosamine biosynthesis II ,
urate biosynthesis/inosine 5'-phosphate degradation ,
urate degradation to allantoin I ,
vitamin D3 biosynthesis

Additional pathways which may be present in Mus musculus and all its sub-taxa (412)
These pathways were inferred using their expected taxonomic range:
(1,4)-β-xylan degradation ,
1D-myo-inositol hexakisphosphate biosynthesis II (mammalian) ,
2-amino-3-carboxymuconate semialdehyde degradation to glutaryl-CoA ,
2-aminoethylphosphonate biosynthesis ,
[2Fe-2S] iron-sulfur cluster biosynthesis ,
2-methylbutyrate biosynthesis ,
2-oxobutanoate degradation I ,
3-phosphoinositide biosynthesis ,
3-phosphoinositide degradation ,
4-aminobutyrate degradation ,
4-hydroxy-2-nonenal detoxification ,
4-hydroxybenzoate biosynthesis I (eukaryotes) ,
4-hydroxyphenylpyruvate biosynthesis ,
5-aminoimidazole ribonucleotide biosynthesis I ,
acetate conversion to acetyl-CoA ,
acetate formation from acetyl-CoA II ,
acetyl-CoA biosynthesis III (from citrate) ,
acyl-ACP thioesterase pathway ,
acyl carrier protein metabolism II (mammalian) ,
acyl-CoA hydrolysis ,
adenine and adenosine salvage I ,
adenine and adenosine salvage II ,
adenine and adenosine salvage II ,
adenine and adenosine salvage III ,
adenosine 5'-phosphoramidate biosynthesis ,
adenosine deoxyribonucleotides de novo biosynthesis ,
adenosine nucleotides degradation II ,
adenosine ribonucleotides de novo biosynthesis ,
aerobic respiration I (cytochrome c) ,
alanine biosynthesis II ,
alanine biosynthesis III ,
alanine degradation III ,
allantoin degradation to ureidoglycolate II (ammonia producing) ,
allantoin degradation to ureidoglycolate I (urea producing) ,
allopregnanolone biosynthesis ,
all-trans-decaprenyl diphosphate biosynthesis ,
all-trans-farnesol biosynthesis ,
all trans undecaprenyl diphosphate biosynthesis ,
α-tocopherol degradation ,
anandamide degradation ,
androgen biosynthesis ,
anthranilate degradation IV (aerobic) ,
arginine degradation I (arginase pathway) ,
arginine degradation V (arginine deiminase pathway) ,
arginine degradation X (arginine monooxygenase pathway) ,
asparagine biosynthesis I ,
asparagine biosynthesis II ,
asparagine degradation I ,
asparagine degradation III (mammalian) ,
aspartate biosynthesis ,
aspartate degradation I ,
aspartate degradation II ,
aspirin-triggered lipoxin biosynthesis ,
aspirin triggered resolvin D biosynthesis ,
aspirin triggered resolvin E biosynthesis ,
β-alanine degradation I ,
beta-carboline biosynthesis ,
bisabolene biosynthesis ,
bupropion degradation ,
C20 prostanoid biosynthesis ,
carbon disulfide oxidation II (aerobic) ,
cardiolipin biosynthesis II ,
carnosine biosynthesis ,
carotenoid cleavage ,
catecholamine biosynthesis ,
CDP-diacylglycerol biosynthesis I ,
cellulose biosynthesis ,
ceramide degradation ,
chitin degradation II ,
chitin degradation to ethanol ,
chlorogenic acid degradation ,
cholesterol biosynthesis I ,
cholesterol biosynthesis III (via desmosterol) ,
cholesterol biosynthesis II (via 24,25-dihydrolanosterol) ,
choline degradation I ,
chondroitin and dermatan biosynthesis ,
chondroitin sulfate biosynthesis ,
chondroitin sulfate biosynthesis (late stages) ,
chondroitin sulfate degradation (metazoa) ,
chrysophanol biosynthesis ,
cis-calamenene related sesquiterpenoids biosynthesis ,
citrulline degradation ,
citrulline-nitric oxide cycle ,
CMP-2-keto-3-deoxy-D-glycero-D-galacto-nononate biosynthesis ,
CMP phosphorylation ,
coenzyme A biosynthesis I ,
coenzyme A biosynthesis II (mammalian) ,
costunolide biosynthesis ,
creatine biosynthesis ,
creatine-phosphate biosynthesis ,
cysteine biosynthesis/homocysteine degradation ,
cysteine biosynthesis III (mammalian) ,
dammara-20,24-diene biosynthesis ,
dermatan sulfate biosynthesis ,
dermatan sulfate biosynthesis (late stages) ,
dermatan sulfate degradation (metazoa) ,
D-galactose degradation V (Leloir pathway) ,
diacylglyceryl-N,N,N-trimethylhomoserine biosynthesis ,
dimethylsulfoniopropionate degradation I (cleavage) ,
dimethyl sulfoxide degradation ,
diphthamide biosynthesis (eukaryotes) ,
D-mannose degradation ,
D-myo-inositol (1,3,4)-trisphosphate biosynthesis ,
D-myo-inositol (1,4,5,6)-tetrakisphosphate biosynthesis ,
D-myo-inositol (1,4,5)-trisphosphate biosynthesis ,
D-myo-inositol (1,4,5)-trisphosphate degradation ,
D-myo-inositol (3,4,5,6)-tetrakisphosphate biosynthesis ,
D-myo-inositol-5-phosphate metabolism ,
docosahexanoate biosynthesis I ,
docosahexanoate biosynthesis II ,
dolichol and dolichyl phosphate biosynthesis ,
dolichyl-diphosphooligosaccharide biosynthesis ,
dopamine degradation ,
D-serine degradation ,
eicosapentaenoate biosynthesis III (fungi) ,
eicosapentaenoate biosynthesis II (metazoa) ,
ent -kaurene biosynthesis II ,
Entner-Doudoroff pathway I ,
epoxysqualene biosynthesis ,
estradiol biosynthesis II ,
estradiol biosynthesis I (via estrone) ,
ethanol degradation II ,
ethanol degradation IV ,
fatty acid activation ,
fatty acid α-oxidation II ,
fatty acid α-oxidation III ,
fatty acid β-oxidation I ,
fatty acid β-oxidation III (unsaturated, odd number) ,
fatty acid beta-oxidation V (unsaturated, odd number, di-isomerase-dependent) ,
fatty acid biosynthesis initiation I ,
fatty acid biosynthesis initiation II ,
flavin biosynthesis IV (mammalian) ,
folate polyglutamylation ,
folate transformations I ,
formaldehyde oxidation II (glutathione-dependent) ,
fructose 2,6-bisphosphate biosynthesis ,
GABA shunt ,
γ-glutamyl cycle ,
γ-linolenate biosynthesis II (animals) ,
GDP-glucose biosynthesis ,
GDP-L-fucose biosynthesis I (from GDP-D-mannose) ,
GDP-L-fucose biosynthesis II (from L-fucose) ,
GDP-mannose biosynthesis ,
geodin biosynthesis ,
geranyl diphosphate biosynthesis ,
geranylgeranyl diphosphate biosynthesis ,
glucocorticoid biosynthesis ,
gluconeogenesis III ,
glucose and glucose-1-phosphate degradation ,
glutamate and glutamine biosynthesis ,
glutamate biosynthesis II ,
glutamate biosynthesis III ,
glutamate degradation I ,
glutamate degradation IX (via 4-aminobutyrate) ,
glutamate degradation X ,
glutamate removal from folates ,
glutamine biosynthesis I ,
glutamine degradation I ,
glutaryl-CoA degradation ,
glutathione biosynthesis ,
glutathione-mediated detoxification I ,
glutathione redox reactions I ,
glutathione redox reactions II ,
glutathionylspermidine biosynthesis ,
glycerol-3-phosphate shuttle ,
glycerol degradation V ,
glycine betaine degradation I ,
glycine betaine degradation II (mammalian) ,
glycine biosynthesis I ,
glycine biosynthesis II ,
glycine biosynthesis III ,
glycine cleavage ,
glycoaminoglycan-protein linkage region biosynthesis ,
glycogen biosynthesis II (from UDP-D-Glucose) ,
glycogen degradation I ,
glycogen degradation III ,
glycogenolysis II ,
glycolysis I (from glucose 6-phosphate) ,
glycolysis II (from fructose 6-phosphate) ,
glycolysis VI (metazoan) ,
glyoxylate cycle ,
guanine and guanosine salvage II ,
guanosine deoxyribonucleotides de novo biosynthesis I ,
heparan sulfate biosynthesis ,
heparan sulfate biosynthesis (late stages) ,
heptaprenyl diphosphate biosynthesis ,
hexaprenyl diphosphate biosynthesis ,
histamine degradation ,
histidine degradation III ,
histidine degradation V ,
histidine degradation VI ,
homocarnosine biosynthesis ,
homolactic fermentation ,
homospermidine biosynthesis ,
hydrogen sulfide biosynthesis II (mammalian) ,
hypusine biosynthesis ,
inosine-5'-phosphate biosynthesis II ,
inositol pyrophosphates biosynthesis ,
isoleucine biosynthesis I (from threonine) ,
isoleucine degradation I ,
isoprene biosynthesis II (engineered) ,
itaconate degradation ,
ketogenesis ,
ketolysis ,
laminaribiose degradation ,
lanosterol biosynthesis ,
L-cysteine degradation I ,
L-cysteine degradation II ,
L-dopachrome biosynthesis ,
L-dopa degradation ,
leucine degradation I ,
leukotriene biosynthesis ,
L-glutamine biosynthesis II (tRNA-dependent) ,
linalool biosynthesis I ,
linalool biosynthesis II ,
lipoate biosynthesis and incorporation I ,
lipoate salvage I ,
lipoxin biosynthesis ,
L-Nδ-acetylornithine biosynthesis ,
L-serine degradation ,
lysine degradation II (pipecolate pathway) ,
mannosyl-glycoprotein N-acetylglucosaminyltransferases ,
melibiose degradation ,
methionine degradation I (to homocysteine) ,
methionine salvage from homocysteine ,
methylglyoxal degradation I ,
methylglyoxal degradation II ,
methylglyoxal degradation III ,
methylglyoxal degradation VI ,
methylglyoxal degradation VII ,
methylglyoxal degradation VIII ,
methylhalides biosynthesis (plants) ,
methyl ketone biosynthesis ,
mevalonate pathway I ,
mineralocorticoid biosynthesis ,
molybdenum cofactor biosynthesis ,
monoacylglycerol metabolism (yeast) ,
morphine biosynthesis ,
mRNA capping I ,
mRNA capping II ,
mucin core 1 and core 2 O-glycosylation ,
mucin core 3 and core 4 O-glycosylation ,
myo-inositol biosynthesis ,
N10-formyl-tetrahydrofolate biosynthesis ,
N-acetylglucosamine degradation I ,
N-acetylglucosamine degradation II ,
NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde ,
NAD biosynthesis I (from aspartate) ,
NAD biosynthesis II (from tryptophan) ,
NADH repair ,
NADH to cytochrome bd oxidase electron transfer I ,
NAD phosphorylation and dephosphorylation I ,
NAD salvage pathway III ,
neurosporaxanthin biosynthesis ,
nicotine degradation III ,
nicotine degradation IV ,
nonaprenyl diphosphate biosynthesis I ,
noradrenaline and adrenaline degradation ,
octanoyl-ACP biosynthesis (mitochondria, yeast) ,
octaprenyl diphosphate biosynthesis ,
oleate biosynthesis II (animals and fungi) ,
ornithine de novo biosynthesis ,
oxidative ethanol degradation III ,
oxidized GTP and dGTP detoxification ,
palmitate biosynthesis I (animals and fungi) ,
palmitoleate biosynthesis II ,
pentose phosphate pathway ,
pentose phosphate pathway (non-oxidative branch) ,
pentose phosphate pathway (oxidative branch) I ,
phenylalanine degradation I (aerobic) ,
phenylalanine degradation IV (mammalian, via side chain) ,
phenylethanol biosynthesis ,
phenylethylamine degradation I ,
phosphate acquisition ,
phosphatidylcholine resynthesis via glycerophosphocholine ,
phosphatidylethanolamine biosynthesis III ,
phosphatidylglycerol biosynthesis II (non-plastidic) ,
phosphatidylglycerol biosynthesis I (plastidic) ,
phosphatidylserine biosynthesis I ,
phosphatidylserine biosynthesis II ,
phospholipases ,
phospholipid remodeling (phosphatidate, yeast) ,
phospholipid remodeling (phosphatidylcholine, yeast) ,
phospholipid remodeling (phosphatidylethanolamine, yeast) ,
phytol degradation ,
plumbagin biosynthesis ,
polyisoprenoid biosynthesis (E. coli) ,
polyvinyl alcohol degradation ,
pregnenolone biosynthesis ,
progesterone biosynthesis ,
proline biosynthesis I ,
proline biosynthesis II (from arginine) ,
proline degradation ,
propionyl CoA degradation ,
protein O-[N-acetyl]-glucosylation ,
protein ubiquitination ,
PRPP biosynthesis I ,
pseudouridine degradation ,
purine deoxyribonucleosides degradation ,
purine deoxyribonucleosides salvage ,
purine ribonucleosides degradation ,
putrescine biosynthesis I ,
putrescine biosynthesis III ,
pyridoxal 5'-phosphate salvage I ,
pyrimidine deoxyribonucleosides degradation ,
pyrimidine deoxyribonucleosides salvage ,
pyrimidine deoxyribonucleotide phosphorylation ,
pyrimidine deoxyribonucleotides biosynthesis from CTP ,
pyrimidine deoxyribonucleotides de novo biosynthesis I ,
pyrimidine ribonucleosides degradation ,
pyrimidine ribonucleosides salvage I ,
pyruvate decarboxylation to acetyl CoA ,
pyruvate fermentation to acetate V ,
pyruvate fermentation to acetate VII ,
pyruvate fermentation to butanol II ,
pyruvate fermentation to hexanol ,
pyruvate fermentation to isobutanol (engineered) ,
pyruvate fermentation to lactate ,
Rapoport-Luebering glycolytic shunt ,
raspberry ketone biosynthesis ,
reactive oxygen species degradation (mammalian) ,
resolvin D biosynthesis ,
resveratrol degradation ,
retinoate biosynthesis I ,
retinoate biosynthesis II ,
retinol biosynthesis ,
ricinine degradation ,
S-adenosyl-L-methionine cycle II ,
sciadonate biosynthesis ,
sedoheptulose bisphosphate bypass ,
selinene biosynthesis ,
serine biosynthesis ,
serine racemization ,
S-methyl-5'-thioadenosine degradation II ,
spermidine biosynthesis I ,
spermine biosynthesis ,
(S)-reticuline biosynthesis II ,
sterol:steryl ester interconversion (yeast) ,
sucrose degradation V (sucrose α-glucosidase) ,
sulfate activation for sulfonation ,
superoxide radicals degradation ,
superpathway of adenosine nucleotides de novo biosynthesis I ,
superpathway of adenosine nucleotides de novo biosynthesis II ,
superpathway of alliin degradation ,
superpathway of asparagine biosynthesis ,
superpathway of cholesterol biosynthesis ,
superpathway of citrulline metabolism ,
superpathway of dimethylsulfoniopropionate degradation ,
superpathway of D-myo-inositol (1,4,5)-trisphosphate metabolism ,
superpathway of fatty acid biosynthesis initiation (E. coli) ,
superpathway of geranylgeranyldiphosphate biosynthesis I (via mevalonate) ,
superpathway of glycolysis and Entner-Doudoroff ,
superpathway of guanosine nucleotides de novo biosynthesis I ,
superpathway of heme biosynthesis from glycine ,
superpathway of inositol phosphate compounds ,
superpathway of leucine, valine, and isoleucine biosynthesis ,
superpathway of NAD biosynthesis in eukaryotes ,
superpathway of polyamine biosynthesis II ,
superpathway of purine nucleotide salvage ,
superpathway of purine nucleotides de novo biosynthesis I ,
superpathway of pyrimidine deoxyribonucleoside salvage ,
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis ,
superpathway of pyrimidine ribonucleosides degradation ,
superpathway of pyrimidine ribonucleotides de novo biosynthesis ,
superpathway of serine and glycine biosynthesis I ,
superpathway of steroid hormone biosynthesis ,
superpathway phosphatidate biosynthesis (yeast) ,
taxadiene biosynthesis (engineered) ,
TCA cycle III (animals) ,
terminal O-glycans residues modification ,
terminal olefins biosynthesis I ,
terminal olefins biosynthesis II ,
tetrahydrobiopterin biosynthesis I ,
tetrahydrobiopterin biosynthesis II ,
tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate ,
tetrapyrrole biosynthesis II (from glycine) ,
the visual cycle I (vertebrates) ,
thiamin triphosphate metabolism ,
thio-molybdenum cofactor biosynthesis ,
thioredoxin pathway ,
thiosulfate disproportionation III (rhodanese) ,
threonine degradation ,
threonine degradation II ,
thymine degradation ,
trans, trans-farnesyl diphosphate biosynthesis ,
triacylglycerol biosynthesis ,
triacylglycerol degradation ,
tRNA charging ,
tRNA methylation (yeast) ,
tRNA splicing ,
tyrosine biosynthesis IV ,
tyrosine degradation I ,
ubiquinol-10 biosynthesis (eukaryotic) ,
UDP-D-galactose biosynthesis ,
UDP-glucose biosynthesis ,
UDP-N-acetyl-D-galactosamine biosynthesis I ,
UDP-N-acetyl-D-glucosamine biosynthesis I ,
UMP biosynthesis ,
uracil degradation I (reductive) ,
urea cycle ,
UTP and CTP de novo biosynthesis ,
UTP and CTP dephosphorylation I ,
UTP and CTP dephosphorylation II ,
valencene and 7-epi-α-selinene biosynthesis ,
valine biosynthesis ,
valine degradation I ,
very long chain fatty acid biosynthesis I ,
very long chain fatty acid biosynthesis II ,
wybutosine biosynthesis ,
xanthine and xanthosine salvage ,
xylitol degradation ,
zymosterol biosynthesis


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of MetaCyc: Caspi et al, Nucleic Acids Research 42:D459-D471 2014
Page generated by SRI International Pathway Tools version 18.5 on Thu Dec 18, 2014, BIOCYC13A.