Cps1 (carbamoyl-phosphate synthase 1) - Rat Genome Database
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Gene: Cps1 (carbamoyl-phosphate synthase 1) Rattus norvegicus
Analyze
Symbol: Cps1
Name: carbamoyl-phosphate synthase 1
RGD ID: 2395
Description: Exhibits several functions, including anion binding activity; calcium ion binding activity; and carbamoyl-phosphate synthase (ammonia) activity. Involved in several processes, including cellular response to cAMP; cellular response to oleic acid; and response to peptide hormone. Localizes to mitochondrial inner membrane and protein-containing complex. Biomarker of fatty liver disease; hypertension; and obesity. Human ortholog(s) of this gene implicated in carbamoyl phosphate synthetase I deficiency disease; persistent fetal circulation syndrome; and vascular disease. Orthologous to human CPS1 (carbamoyl-phosphate synthase 1); PARTICIPATES IN urea cycle pathway; 2-hydroxyglutaric aciduria pathway; AGAT deficiency pathway; INTERACTS WITH (+)-schisandrin B; 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: carbamoyl-phosphate synthase [ammonia], mitochondrial; carbamoyl-phosphate synthetase 1; carbamoyl-phosphate synthetase 1, mitochondrial; carbamoyl-phosphate synthetase I; carbamyl phosphate synthetase I; carbamyl-phosphate synthetase; Carboamyl-phosphate synthetase 1; cps; cps-1; CPSase I
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2968,614,153 - 68,737,037 (+)NCBI
Rnor_6.0 Ensembl974,124,016 - 74,236,274 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0974,113,437 - 74,236,274 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0973,072,857 - 73,183,868 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4965,907,211 - 66,017,942 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1966,054,192 - 66,164,924 (+)NCBI
Celera966,092,717 - 66,214,118 (+)NCBICelera
Cytogenetic Map9q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
3-chloropropane-1,2-diol  (EXP)
acetamide  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bosentan  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
captan  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP,ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dexamethasone  (EXP,ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP,ISO)
entinostat  (ISO)
ethanol  (EXP)
etoposide  (ISO)
flutamide  (EXP)
folpet  (ISO)
formaldehyde  (ISO)
glafenine  (EXP)
hydrogen peroxide  (ISO)
iodide salt  (EXP)
isoprenaline  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
nitric oxide  (ISO)
nitroprusside  (ISO)
O-methyleugenol  (ISO)
ochratoxin A  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorododecanoic acid  (EXP)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
quercetin  (ISO)
sodium arsenate  (ISO)
sodium dichromate  (EXP,ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tauroursodeoxycholic acid  (EXP)
tetrachloromethane  (EXP,ISO)
thimerosal  (ISO)
troglitazone  (EXP,ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Barber T, etal., Biochem J. 1985 Sep 15;230(3):675-81.
2. Brands R and Hoogenraad N, Aust J Exp Biol Med Sci. 1986 Apr;64 ( Pt 2):165-73.
3. Brandt MA and Powers-Lee SG, Arch Biochem Biophys. 1991 Oct;290(1):14-20.
4. Corvi MM, etal., J Biol Chem. 2001 Dec 7;276(49):45704-12. Epub 2001 Sep 27.
5. de Groot CJ, etal., Biochim Biophys Acta. 1987 Apr 29;908(3):231-40.
6. De Jonge WJ, etal., Pediatr Res. 1998 Apr;43(4 Pt 1):442-51.
7. Dingemanse MA, etal., Hepatology. 1996 Aug;24(2):407-11.
8. Evtodienko YV, etal., FEBS Lett. 1998 Feb 13;423(1):45-8.
9. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Gelosa P, etal., Eur J Pharmacol. 2009 Feb 14;604(1-3):117-24. Epub 2008 Dec 24.
11. GOA data from the GO Consortium
12. Goss SJ J Cell Sci. 1984 Jun;68:305-19.
13. Grofte T, etal., Am J Physiol. 1998 Jul;275(1 Pt 1):E79-86.
14. Hoshide R, etal., J Clin Invest. 1993 May;91(5):1884-7.
15. Karsai T, etal., Anticancer Res. 1985 Jul-Aug;5(4):441-4.
16. KEGG
17. Khoja S, etal., Mol Genet Metab. 2018 Apr 12. pii: S1096-7192(18)30059-3. doi: 10.1016/j.ymgme.2018.04.001.
18. Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
19. Kim HS, etal., J Biochem Mol Biol. 2007 Jul 31;40(4):604-9.
20. Kim WH, etal., J Hepatol. 2001 Dec;35(6):719-25.
21. Lardner AL and O'Donovan DJ, Metabolism. 1998 Feb;47(2):163-7.
22. McCudden CR and Powers-Lee SG, J Biol Chem. 1996 Jul 26;271(30):18285-94.
23. Moorman AF, etal., FEBS Lett. 1990 Dec 10;276(1-2):9-13.
24. Nagasaki T Nippon Sanka Fujinka Gakkai Zasshi. 1985 Jan;37(1):24-30.
25. NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. Nielsen SS, etal., Hepatol Res. 2007 Jul;37(7):540-7.
27. Notenboom RG, etal., Hepatology. 2003 Sep;38(3):683-91.
28. Nyunoya H, etal., J Biol Chem 1985 Aug 5;260(16):9346-56.
29. Ohyama T, etal., FEBS Lett. 2004 Aug 13;572(1-3):251-5.
30. OMIM Disease Annotation Pipeline
31. Online Mendelian Inheritance in Man, OMIM (TM).
32. Ozaki M, etal., Enzyme Protein. 1994-1995;48(4):213-21.
33. Pearson DL, etal., N Engl J Med. 2001 Jun 14;344(24):1832-8.
34. Pipeline to import KEGG annotations from KEGG into RGD
35. Pipeline to import SMPDB annotations from SMPDB into RGD
36. Powers-Lee SG, etal., J Biol Chem. 1987 Nov 15;262(32):15683-8.
37. Rector RS, etal., J Hepatol. 2010 May;52(5):727-36. Epub 2010 Mar 4.
38. RGD automated data pipeline
39. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
40. RGD automated import pipeline for gene-chemical interactions
41. Roig R, etal., Int J Obes Relat Metab Disord. 1997 Aug;21(8):681-5.
42. Roth HP J Nutr. 2003 Jul;133(7):2294-301.
43. Ruhnke M, etal., Stem Cells. 2003;21(4):428-36.
44. Ryall JC, etal., Eur J Biochem. 1986 May 2;156(3):453-8.
45. Schoneveld OJ, etal., Biochimie. 2007 May;89(5):574-80. Epub 2007 Feb 20.
46. Summar ML, etal., Hypertension. 2004 Feb;43(2):186-91. Epub 2004 Jan 12.
47. Thome-Kromer B, etal., Proteomics. 2003 Oct;3(10):1835-62.
48. Tomomura M, etal., FEBS Lett. 1996 Dec 16;399(3):310-2.
49. Tygstrup N, etal., Biochem Biophys Res Commun 2002 Jan 11;290(1):518-25.
50. Tygstrup N, etal., J Hepatol. 1996 Jul;25(1):72-8.
51. Ulbright C and Snodgrass PJ, Arch Biochem Biophys. 1993 Mar;301(2):237-43.
52. Wallace K, etal., J Steroid Biochem Mol Biol. 2009 Aug;116(1-2):76-85. Epub 2009 May 13.
53. Walters MW and Wallace KB, Toxicol Lett. 2010 Aug 1;197(1):46-50. Epub 2010 May 7.
54. Wu SJ, etal., Sci Sin B. 1988 Feb;31(2):197-203.
Additional References at PubMed
PMID:6200105   PMID:6249820   PMID:7416778   PMID:9711878   PMID:9862865   PMID:15897806   PMID:17140418   PMID:18063578   PMID:20031578   PMID:21120950   PMID:22402285   PMID:25684186  
PMID:26767982  


Genomics

Comparative Map Data
Cps1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2968,614,153 - 68,737,037 (+)NCBI
Rnor_6.0 Ensembl974,124,016 - 74,236,274 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0974,113,437 - 74,236,274 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0973,072,857 - 73,183,868 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4965,907,211 - 66,017,942 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1966,054,192 - 66,164,924 (+)NCBI
Celera966,092,717 - 66,214,118 (+)NCBICelera
Cytogenetic Map9q32NCBI
CPS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2210,477,682 - 210,679,107 (+)EnsemblGRCh38hg38GRCh38
GRCh382210,477,685 - 210,679,107 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372211,342,409 - 211,543,831 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362211,129,583 - 211,252,076 (+)NCBINCBI36hg18NCBI36
Build 342211,246,843 - 211,369,335NCBI
Celera2205,110,438 - 205,311,714 (+)NCBI
Cytogenetic Map2q34NCBI
HuRef2203,188,451 - 203,390,097 (+)NCBIHuRef
CHM1_12211,348,531 - 211,549,854 (+)NCBICHM1_1
Cps1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39167,151,294 - 67,270,426 (+)NCBIGRCm39mm39
GRCm39 Ensembl167,162,185 - 67,270,418 (+)Ensembl
GRCm38167,122,426 - 67,231,267 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl167,123,026 - 67,231,259 (+)EnsemblGRCm38mm10GRCm38
MGSCv37167,169,640 - 67,277,022 (+)NCBIGRCm37mm9NCBIm37
MGSCv36167,056,235 - 67,164,475 (+)NCBImm8
Celera167,649,362 - 67,756,702 (+)NCBICelera
Cytogenetic Map1C3NCBI
cM Map133.75NCBI
Cps1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554574,844,152 - 4,961,246 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554574,848,116 - 4,961,384 (-)NCBIChiLan1.0ChiLan1.0
CPS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B216,136,857 - 216,337,728 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B216,136,857 - 216,337,728 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B97,735,486 - 97,936,623 (+)NCBIMhudiblu_PPA_v0panPan3
CPS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13718,308,164 - 18,428,487 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3718,143,986 - 18,427,697 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3719,188,984 - 19,309,290 (+)NCBI
ROS_Cfam_1.03718,246,433 - 18,366,577 (+)NCBI
UMICH_Zoey_3.13718,198,783 - 18,319,066 (+)NCBI
UNSW_CanFamBas_1.03718,161,084 - 18,281,176 (+)NCBI
UU_Cfam_GSD_1.03718,175,864 - 18,296,018 (+)NCBI
Cps1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_ltri_2NW_024405303166,764,670 - 166,886,826 (+)NCBI
SpeTri2.0NW_0049365865,739,038 - 5,850,317 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15113,209,999 - 113,339,078 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115113,210,038 - 113,339,086 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215125,183,128 - 125,279,098 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CPS1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11096,267,890 - 96,392,393 (+)NCBI
ChlSab1.1 Ensembl1096,267,889 - 96,392,206 (+)Ensembl
Cps1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247655,527,029 - 5,652,343 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92569234292741406Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92748615588333183Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92907507983686404Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)929466970107878528Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93238513377385133Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93764235182642351Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93764235182642351Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)94126103490024806Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94126103498606834Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)941261034102531865Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94657976991579769Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94657976991579769Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94695242783686153Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94724896594124663Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95417754299177542Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)95488504176677636Rat
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)96081029882732466Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)961186278106186278Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)96173092382890620Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)96173092382890620Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)96173092382890620Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)963270073107878387Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)966757444112943287Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96745166499920892Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96745166499920892Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)970241351115241351Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)970942881115942881Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:52
Count of miRNA genes:50
Interacting mature miRNAs:52
Transcripts:ENSRNOT00000019023
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.


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 25 19 19
Medium 2 14 12 12 2 2
Low 4 23 10 15 10 8 8 33 27 14 6 8
Below cutoff 1 24 1 2 1 33 8 21 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019023   ⟹   ENSRNOP00000019021
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl974,124,016 - 74,236,274 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl974,232,497 - 74,235,700 (+)Ensembl
RefSeq Acc Id: NM_017072   ⟹   NP_058768
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2968,614,153 - 68,736,131 (+)NCBI
Rnor_6.0974,113,437 - 74,235,368 (+)NCBI
Rnor_5.0973,072,857 - 73,183,868 (-)NCBI
RGSC_v3.4965,907,211 - 66,017,942 (+)RGD
Celera966,092,717 - 66,214,118 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596592   ⟹   XP_017452081
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2968,624,729 - 68,737,037 (+)NCBI
Rnor_6.0974,123,994 - 74,236,274 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058768   ⟸   NM_017072
- Peptide Label: precursor
- UniProtKB: P07756 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017452081   ⟸   XM_017596592
- Peptide Label: isoform X1
- UniProtKB: P07756 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000019021   ⟸   ENSRNOT00000019023
Transcriptome

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

Promoters
RGD ID:13696729
Promoter ID:EPDNEW_R7254
Type:multiple initiation site
Name:Cps1_1
Description:carbamoyl-phosphate synthase 1
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_6.0974,124,017 - 74,124,077EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2395 AgrOrtholog
Ensembl Genes ENSRNOG00000013704 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000019021 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000019023 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.1030.10 UniProtKB/Swiss-Prot
  3.30.1490.20 UniProtKB/Swiss-Prot
  3.40.50.1380 UniProtKB/Swiss-Prot
  3.40.50.880 UniProtKB/Swiss-Prot
  3.50.30.20 UniProtKB/Swiss-Prot
InterPro ATP-grasp UniProtKB/Swiss-Prot
  ATP_grasp_subdomain_1 UniProtKB/Swiss-Prot
  CarbamoylP_synth_lsu UniProtKB/Swiss-Prot
  CarbamoylP_synth_lsu_oligo UniProtKB/Swiss-Prot
  CarbamoylP_synth_lsu_oligo_sf UniProtKB/Swiss-Prot
  CarbamoylP_synth_ssu UniProtKB/Swiss-Prot
  CarbamoylP_synth_ssu_N UniProtKB/Swiss-Prot
  CarbP_synth_ssu_N_sf UniProtKB/Swiss-Prot
  CbamoylP_synth_lsu-like_ATP-bd UniProtKB/Swiss-Prot
  CbamoylP_synth_lsu_CPSase_dom UniProtKB/Swiss-Prot
  Class_I_gatase-like UniProtKB/Swiss-Prot
  CPSase_GATase1 UniProtKB/Swiss-Prot
  GATASE UniProtKB/Swiss-Prot
  MGS-like_dom UniProtKB/Swiss-Prot
  MGS-like_dom_sf UniProtKB/Swiss-Prot
  PreATP-grasp_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:497840 UniProtKB/Swiss-Prot
NCBI Gene 497840 ENTREZGENE
Pfam CPSase_L_D2 UniProtKB/Swiss-Prot
  CPSase_L_D3 UniProtKB/Swiss-Prot
  CPSase_sm_chain UniProtKB/Swiss-Prot
  GATase UniProtKB/Swiss-Prot
  MGS UniProtKB/Swiss-Prot
PhenoGen Cps1 PhenoGen
PRINTS CPSASE UniProtKB/Swiss-Prot
PROSITE ATP_GRASP UniProtKB/Swiss-Prot
  CPSASE_1 UniProtKB/Swiss-Prot
  CPSASE_2 UniProtKB/Swiss-Prot
  GATASE_TYPE_1 UniProtKB/Swiss-Prot
  MGS UniProtKB/Swiss-Prot
SMART CPSase_L_D3 UniProtKB/Swiss-Prot
  CPSase_sm_chain UniProtKB/Swiss-Prot
  MGS UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48108 UniProtKB/Swiss-Prot
  SSF52021 UniProtKB/Swiss-Prot
  SSF52317 UniProtKB/Swiss-Prot
  SSF52335 UniProtKB/Swiss-Prot
  SSF52440 UniProtKB/Swiss-Prot
TIGRFAMs CPSaseII_lrg UniProtKB/Swiss-Prot
  CPSaseIIsmall UniProtKB/Swiss-Prot
UniProt CPSM_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-25 Cps1  carbamoyl-phosphate synthase 1  Cps1  carbamoyl-phosphate synthetase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-11-05 Cps1  carbamoyl-phosphate synthetase 1  Cps1  carbamoyl-phosphate synthetase 1, mitochondrial  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Cps1  carbamoyl-phosphate synthetase 1, mitochondrial  Cps1  carbamoyl-phosphate synthetase 1  Name updated 1299863 APPROVED
2004-09-10 Cps1  carbamoyl-phosphate synthetase 1, mitochondrial    carbamoyl-phosphate synthetase 1  Name updated 1299863 APPROVED
2002-06-10 Cps1  Carboamyl-phosphate synthetase 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression maybe induced in response to some types liver damage 70249
gene_protein 1,500 amino acids; 164.5 kDa 728256