Pck1 (phosphoenolpyruvate carboxykinase 1) - Rat Genome Database

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Gene: Pck1 (phosphoenolpyruvate carboxykinase 1) Rattus norvegicus
Analyze
Symbol: Pck1
Name: phosphoenolpyruvate carboxykinase 1
RGD ID: 3267
Description: Exhibits several functions, including manganese ion binding activity; nucleoside diphosphate kinase activity; and purine ribonucleoside binding activity. Involved in several processes, including cellular response to cytokine stimulus; cellular response to hexose stimulus; and cellular response to organonitrogen compound. Localizes to cytoplasm. Used to study type 2 diabetes mellitus. Biomarker of non-alcoholic steatohepatitis. Human ortholog(s) of this gene implicated in Alzheimer's disease and type 2 diabetes mellitus. Orthologous to human PCK1 (phosphoenolpyruvate carboxykinase 1); PARTICIPATES IN gluconeogenesis pathway; glycolysis/gluconeogenesis pathway; forkhead class A signaling pathway; INTERACTS WITH (+)-alpha-tocopherol; (+)-schisandrin B; (-)-epigallocatechin 3-gallate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: GTP; MGC93820; PCK; Pepck; PEPCK-C; Phosphoenolpyruvate carboxykinase; phosphoenolpyruvate carboxykinase (GTP); phosphoenolpyruvate carboxykinase 1 (soluble); phosphoenolpyruvate carboxykinase 1, cytosolic; phosphoenolpyruvate carboxykinase, cytosolic; phosphoenolpyruvate carboxykinase, cytosolic (GTP); phosphoenolpyruvate carboxykinase, cytosolic [GTP]; phosphoenolpyruvate carboxylase; RATPEPCK; serine-protein kinase PCK1
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
mRatBN7.23161,930,256 - 161,936,205 (+)NCBI
Rnor_6.0 Ensembl3171,213,936 - 171,219,871 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03171,213,936 - 171,219,885 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03177,278,783 - 177,284,732 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43164,012,410 - 164,018,359 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13163,918,445 - 163,924,394 (+)NCBI
Celera3161,118,524 - 161,124,473 (+)NCBICelera
RH 3.4 Map31498.6RGD
Cytogenetic Map3q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (EXP)
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (EXP,ISO)
(20S)-ginsenoside Rg3  (EXP)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,1-dichloroethene  (ISO)
1,2,3,4,7,8-Hexachlorodibenzodioxin  (EXP)
1,2-dichloroethane  (ISO)
1-\{2-[(4-chlorobenzyl)sulfanyl]-2-(2,4-dichlorophenyl)ethyl\}-1H-imidazole  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
1H-pyrazole  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2,2-tetramine  (EXP)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dinitrotoluene  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-butoxyethanol  (ISO)
2-chloroethanol  (ISO)
3',5'-cyclic AMP  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5-triiodo-L-thyronine  (EXP,ISO)
3,4-dihydrocoumarin  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP)
3-phenoxybenzoic acid  (EXP)
3-phenylprop-2-enal  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-(4-chlorophenyl)imidazo[2,1-b][1,3]thiazole-5-carbaldehyde O-(3,4-dichlorobenzyl)oxime  (ISO)
9-cis-retinoic acid  (EXP,ISO)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (ISO)
alpha-linolenic acid  (ISO)
aluminium atom  (ISO)
aluminium(0)  (ISO)
AM-251  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bezafibrate  (ISO)
bifenthrin  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (EXP)
bucladesine  (EXP,ISO)
cadmium dichloride  (ISO)
carbamazepine  (ISO)
cefaloridine  (EXP)
chloroethene  (ISO)
choline  (ISO)
chromium atom  (ISO)
ciglitazone  (ISO)
clemizole  (ISO)
clofibrate  (EXP,ISO)
Clofop  (ISO)
clopidogrel  (ISO)
colforsin daropate hydrochloride  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cortisol  (EXP)
curcumin  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
DDE  (EXP)
DDT  (EXP)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
duvoglustat  (ISO)
endosulfan  (EXP,ISO)
ethanol  (EXP)
farnesol  (ISO)
fenofibrate  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fructose  (EXP)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
ginsenoside Re  (ISO)
ginsenoside Rg2  (ISO)
glucagon  (EXP)
glucose  (ISO)
glyburide  (EXP)
GW 4064  (ISO)
GW 501516  (ISO)
GW 7647  (ISO)
hexadecanoic acid  (ISO)
hydrogen chloride  (ISO)
hydrogen peroxide  (EXP,ISO)
imiquimod  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indometacin  (ISO)
irinotecan  (EXP)
iron atom  (EXP)
iron(0)  (EXP)
iron(III) nitrilotriacetate  (EXP)
isoprenaline  (EXP,ISO)
L-methionine  (ISO)
leflunomide  (ISO)
linoleic acid  (ISO)
lipopolysaccharide  (ISO)
lithium chloride  (EXP)
lovastatin  (ISO)
malathion  (EXP)
menadione  (ISO)
metformin  (EXP,ISO)
methapyrilene  (EXP)
methimazole  (ISO)
methotrexate  (ISO)
methoxychlor  (EXP)
mifepristone  (EXP,ISO)
Mitotane  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
naringin  (ISO)
nefazodone  (EXP)
nicotinic acid  (EXP,ISO)
O-methyleugenol  (ISO)
obeticholic acid  (ISO)
ochratoxin A  (EXP)
oleic acid  (ISO)
ozone  (EXP)
palmitoleic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenethyl caffeate  (EXP)
phenobarbital  (EXP,ISO)
PhIP  (EXP)
phlorizin  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
prednisolone  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
Propiverine  (EXP)
quercetin  (EXP,ISO)
quinolin-8-ol  (ISO)
rebaudioside A  (ISO)
resveratrol  (EXP,ISO)
rifampicin  (ISO)
rimonabant  (ISO)
Rutamarin  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (EXP)
SB 203580  (EXP)
SB 431542  (ISO)
selenic acid  (ISO)
silicon dioxide  (ISO)
sirolimus  (EXP)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
steviol  (ISO)
stevioside  (ISO)
streptozocin  (EXP,ISO)
sucrose  (EXP)
sulconazole  (ISO)
sulforaphane  (EXP)
taurine  (ISO)
tauroursodeoxycholic acid  (EXP)
teriflunomide  (ISO)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
Triptolide  (EXP,ISO)
troglitazone  (EXP,ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vitamin E  (EXP)
wortmannin  (EXP)
XL147  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IDA)
cytosol  (IBA,ISO,ISS,TAS)
endoplasmic reticulum  (ISO,ISS)
mitochondrion  (IBA)

References

References - curated
1. Balan MD, etal., Biochemistry. 2015 Sep 29;54(38):5878-87. doi: 10.1021/acs.biochem.5b00822. Epub 2015 Sep 11.
2. Ballard FJ and Hanson RW, Biochem J. 1967 Sep;104(3):866-71.
3. Ballard FJ and Hanson RW, J Biol Chem. 1969 Oct 25;244(20):5625-30.
4. Berry MN, etal., FEBS Lett. 1988 Apr 11;231(1):19-24.
5. Cadoudal T, etal., Diabetologia. 2007 Mar;50(3):666-75. Epub 2007 Jan 23.
6. Cao H, etal., J Clin Endocrinol Metab. 2004 Feb;89(2):898-903.
7. Caton PW, etal., J Endocrinol. 2011 Mar;208(3):273-83. doi: 10.1530/JOE-10-0190. Epub 2011 Jan 6.
8. Caton PW, etal., Life Sci. 2009 May 22;84(21-22):738-44. doi: 10.1016/j.lfs.2009.02.024. Epub 2009 Mar 4.
9. Chang SP, etal., Life Sci. 2006 Jun 13;79(3):240-6. Epub 2006 Feb 3.
10. Christ B Horm Metab Res. 2008 Jan;40(1):18-23.
11. Dong Y, etal., Diabetes Res Clin Pract. 2009 Feb;83(2):227-32. Epub 2008 Dec 13.
12. Drewnowsk KD, etal., J Physiol Pharmacol 2002 Mar;53(1):3-20.
13. Dunten P, etal., J Mol Biol. 2002 Feb 15;316(2):257-64.
14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. Gomez-Valades AG, etal., Diabetes. 2008 Aug;57(8):2199-210. Epub 2008 Apr 28.
16. Gomez-Valades AG, etal., Mol Ther. 2006 Feb;13(2):401-10. Epub 2005 Nov 3.
17. Gouni-Berthold I, etal., Diabet Med. 2006 Apr;23(4):419-25.
18. Hamilton G, etal., Am J Med Genet B Neuropsychiatr Genet. 2007 Jun 5;144B(4):508-16.
19. Hu YB, etal., Drug Des Devel Ther. 2018 Jul 16;12:2213-2221. doi: 10.2147/DDDT.S170518. eCollection 2018.
20. Inoue Y, etal., J Control Release. 2008 Feb 18;126(1):59-66. Epub 2007 Nov 6.
21. Ip YT, etal., Mol Cell Biol 1990 Jul;10(7):3770-81.
22. Iynedjian PB, etal., Biochem J. 1985 Jan 1;225(1):77-84.
23. Jitrapakdee S, etal., Biochem J. 2008 Aug 1;413(3):369-87.
24. Johnson TA, etal., Biochemistry. 2016 Jan 26;55(3):575-87. doi: 10.1021/acs.biochem.5b01215. Epub 2016 Jan 13.
25. KEGG
26. Kong SE, etal., Am J Physiol Endocrinol Metab 2002 Oct;283(4):E692-701.
27. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
28. Latorre-Muro P, etal., Mol Cell. 2018 Sep 6;71(5):718-732.e9. doi: 10.1016/j.molcel.2018.07.031.
29. Lelli SM, etal., Toxicology. 2005 Dec;216(1):49-58. Epub 2005 Aug 24.
30. Lienenluke B and Christ B, Histochem Cell Biol. 2007 Oct;128(4):371-7. Epub 2007 Sep 6.
31. Mcleod MJ, etal., Biochemistry. 2019 Sep 17;58(37):3918-3926. doi: 10.1021/acs.biochem.9b00583. Epub 2019 Sep 6.
32. MGD data from the GO Consortium
33. Miller WH, etal., J Biol Chem. 1992 Oct 15;267(29):21220-4.
34. NCBI rat LocusLink and RefSeq merged data July 26, 2002
35. Niu Y, etal., Eur J Pharmacol. 2007 Oct 31;572(2-3):213-9. Epub 2007 Jun 19.
36. OMIM Disease Annotation Pipeline
37. Parimi PS, etal., Pediatr Res. 2003 Feb;53(2):325-32.
38. Park EY, etal., Exp Gerontol. 2013 Dec;48(12):1518-25. doi: 10.1016/j.exger.2013.10.011. Epub 2013 Oct 29.
39. Perrone CE, etal., J Nutrigenet Nutrigenomics. 2012;5(3):132-57. doi: 10.1159/000339347. Epub 2012 Oct 9.
40. Pipeline to import KEGG annotations from KEGG into RGD
41. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
42. Pipeline to import SMPDB annotations from SMPDB into RGD
43. RGD automated data pipeline
44. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
45. RGD automated import pipeline for gene-chemical interactions
46. Shulman JM, etal., PLoS One. 2010 Jun 21;5(6):e11244. doi: 10.1371/journal.pone.0011244.
47. Song S, etal., Am J Physiol Endocrinol Metab. 2001 Aug;281(2):E275-82.
48. Strakovsky RS, etal., J Physiol. 2011 Jun 1;589(Pt 11):2707-17. doi: 10.1113/jphysiol.2010.203950. Epub 2011 Mar 28.
49. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
50. Sullivan SM and Holyoak T, Biochemistry. 2007 Sep 4;46(35):10078-88. Epub 2007 Aug 9.
51. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
52. Wegner L, etal., Diabet Med. 2006 Oct;23(10):1140-4.
53. Wilson HL, etal., J Biol Chem 2002 Nov 15;277(46):43895-902. Epub 2002 Sep 16.
54. Wimhurst JM and Manchester KL, Biochem J. 1973 May;134(1):143-56.
55. Zeitouni N, etal., Biochem Biophys Res Commun 2002 Feb 8;290(5):1513-20.
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Additional References at PubMed
PMID:1716357   PMID:2909519   PMID:2993287   PMID:3015903   PMID:6090458   PMID:6304730   PMID:9242918   PMID:10224131   PMID:11792850   PMID:11916968   PMID:11968005   PMID:12409311  
PMID:12788931   PMID:12947022   PMID:14744869   PMID:15147725   PMID:15489334   PMID:15604115   PMID:15733865   PMID:16126724   PMID:17158265   PMID:17211624   PMID:17678617   PMID:17903369  
PMID:17964299   PMID:18304430   PMID:18492826   PMID:18772387   PMID:19056867   PMID:19458124   PMID:19521512   PMID:19548567   PMID:19850730   PMID:20167786   PMID:20797423   PMID:21504969  
PMID:21731709   PMID:22142627   PMID:22808220   PMID:23012479   PMID:23015202   PMID:23376485   PMID:26348778   PMID:26681041   PMID:26971250   PMID:27724862   PMID:29601231   PMID:30445425  
PMID:31180589   PMID:32036699  


Genomics

Candidate Gene Status
Pck1 is a candidate Gene for QTL Eau4
Comparative Map Data
Pck1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23161,930,256 - 161,936,205 (+)NCBI
Rnor_6.0 Ensembl3171,213,936 - 171,219,871 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03171,213,936 - 171,219,885 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03177,278,783 - 177,284,732 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43164,012,410 - 164,018,359 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13163,918,445 - 163,924,394 (+)NCBI
Celera3161,118,524 - 161,124,473 (+)NCBICelera
RH 3.4 Map31498.6RGD
Cytogenetic Map3q42NCBI
PCK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2057,561,080 - 57,568,121 (+)EnsemblGRCh38hg38GRCh38
GRCh382057,561,110 - 57,568,121 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372056,136,166 - 56,143,177 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362055,569,543 - 55,574,922 (+)NCBINCBI36hg18NCBI36
Build 342055,569,542 - 55,574,922NCBI
Celera2052,876,507 - 52,881,880 (+)NCBI
Cytogenetic Map20q13.31NCBI
HuRef2052,917,936 - 52,923,310 (+)NCBIHuRef
CHM1_12056,037,177 - 56,042,551 (+)NCBICHM1_1
Pck1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392172,994,866 - 173,001,067 (+)NCBIGRCm39mm39
GRCm39 Ensembl2172,994,841 - 173,001,066 (+)Ensembl
GRCm382173,153,073 - 173,159,274 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2173,153,048 - 173,159,273 (+)EnsemblGRCm38mm10GRCm38
MGSCv372172,978,574 - 172,984,755 (+)NCBIGRCm37mm9NCBIm37
MGSCv362172,796,012 - 172,802,193 (+)NCBImm8
Celera2179,118,257 - 179,124,444 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map295.79NCBI
Pck1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554451,908,946 - 1,915,002 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554451,909,012 - 1,914,032 (-)NCBIChiLan1.0ChiLan1.0
PCK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12055,179,549 - 55,184,920 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2055,179,429 - 55,184,920 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02053,901,738 - 53,907,090 (+)NCBIMhudiblu_PPA_v0panPan3
PCK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12442,538,858 - 42,544,200 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2442,538,882 - 42,544,198 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2441,785,578 - 41,791,088 (+)NCBI
ROS_Cfam_1.02443,403,776 - 43,409,160 (+)NCBI
UMICH_Zoey_3.12442,488,683 - 42,493,998 (+)NCBI
UNSW_CanFamBas_1.02442,628,235 - 42,633,550 (+)NCBI
UU_Cfam_GSD_1.02443,286,331 - 43,291,858 (+)NCBI
Pck1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640182,939,216 - 182,945,488 (-)NCBI
SpeTri2.0NW_004936530361,872 - 367,005 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1757,930,432 - 57,938,896 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11757,930,507 - 57,936,523 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21765,094,783 - 65,100,751 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.126,550,806 - 6,556,499 (-)NCBI
ChlSab1.1 Ensembl26,549,652 - 6,556,478 (-)Ensembl
Vero_WHO_p1.0NW_02366605054,608,451 - 54,614,130 (-)NCBI
Pck1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474123,985,257 - 23,990,354 (+)NCBI

Position Markers
D3Mgh26  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera3161,114,063 - 161,114,271UniSTS
RH 3.4 Map31497.9UniSTS
RH 3.4 Map31497.9RGD
RH 2.0 Map31013.8RGD
FHH x ACI Map3103.83RGD
Cytogenetic Map3q42UniSTS
D9Mit10  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,935,792 - 161,935,942 (+)MAPPER
Rnor_6.03171,219,473 - 171,219,622NCBIRnor6.0
Rnor_5.03177,284,320 - 177,284,469UniSTSRnor5.0
RGSC_v3.43164,017,946 - 164,018,096RGDRGSC3.4
RGSC_v3.43164,017,947 - 164,018,096UniSTSRGSC3.4
RGSC_v3.13163,923,982 - 163,924,132RGD
Celera3161,124,061 - 161,124,210UniSTS
RH 3.4 Map31495.5UniSTS
RH 3.4 Map31495.5RGD
RH 2.0 Map31013.5RGD
Cytogenetic Map3q42UniSTS
D3Arb24  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,935,834 - 161,936,089 (+)MAPPER
Rnor_6.03171,219,515 - 171,219,769NCBIRnor6.0
Rnor_5.03177,284,362 - 177,284,616UniSTSRnor5.0
RGSC_v3.43164,017,988 - 164,018,243RGDRGSC3.4
RGSC_v3.43164,017,989 - 164,018,243UniSTSRGSC3.4
RGSC_v3.13163,924,024 - 163,924,279RGD
Celera3161,124,103 - 161,124,357UniSTS
RH 2.0 Map31012.8RGD
Cytogenetic Map3q42UniSTS
PMC152262P3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,934,097 - 161,934,271 (+)MAPPER
Rnor_6.03171,217,778 - 171,217,951NCBIRnor6.0
Rnor_5.03177,282,625 - 177,282,798UniSTSRnor5.0
RGSC_v3.43164,016,252 - 164,016,425UniSTSRGSC3.4
Celera3161,122,366 - 161,122,539UniSTS
Cytogenetic Map3q42UniSTS
PMC86435P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,930,677 - 161,931,227 (+)MAPPER
Rnor_6.03171,214,358 - 171,214,907NCBIRnor6.0
Rnor_5.03177,279,205 - 177,279,754UniSTSRnor5.0
RGSC_v3.43164,012,832 - 164,013,381UniSTSRGSC3.4
Celera3161,118,946 - 161,119,495UniSTS
Cytogenetic Map3q42UniSTS
PMC133887P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,929,820 - 161,930,160 (+)MAPPER
Rnor_6.03171,213,501 - 171,213,840NCBIRnor6.0
Rnor_5.03177,278,348 - 177,278,687UniSTSRnor5.0
RGSC_v3.43164,011,975 - 164,012,314UniSTSRGSC3.4
Celera3161,118,089 - 161,118,428UniSTS
Cytogenetic Map3q42UniSTS
Pck1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,933,962 - 161,934,036 (+)MAPPER
Rnor_6.03171,217,643 - 171,217,716NCBIRnor6.0
Rnor_5.03177,282,490 - 177,282,563UniSTSRnor5.0
RGSC_v3.43164,016,117 - 164,016,190UniSTSRGSC3.4
Celera3161,122,231 - 161,122,304UniSTS
Cytogenetic Map3q42UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3148348517171467264Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3150368003177699992Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)3103141814176418101Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)3103141814176418101Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3103141814176418101Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3153918022177699992Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128986468173986468Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3146232777177699992Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3153381237174632112Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3156381661176418101Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3170428815177699992Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3132875075176418101Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3153412455177699992Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3148034701177699992Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3153381237174632112Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3153381237174632112Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3130006659175006659Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3153381237174632112Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3153381237174632112Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3153381237174632112Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3153381237174632112Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:55
Interacting mature miRNAs:67
Transcripts:ENSRNOT00000031586
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 11 11 10 12
Medium 2 1 28 13 7 13 1 1 15 6 8 1
Low 1 15 5 4 9 4 7 8 9 4 20 2 7
Below cutoff 25 12 12 2 12 2 16 4 11 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031586   ⟹   ENSRNOP00000030913
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3171,213,936 - 171,219,871 (+)Ensembl
RefSeq Acc Id: NM_198780   ⟹   NP_942075
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23161,930,256 - 161,936,205 (+)NCBI
Rnor_6.03171,213,936 - 171,219,885 (+)NCBI
Rnor_5.03177,278,783 - 177,284,732 (+)NCBI
RGSC_v3.43164,012,410 - 164,018,359 (+)RGD
Celera3161,118,524 - 161,124,473 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_942075   ⟸   NM_198780
- UniProtKB: P07379 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000030913   ⟸   ENSRNOT00000031586

Transcriptome

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

Promoters
RGD ID:13692711
Promoter ID:EPDNEW_R3236
Type:single initiation site
Name:Pck1_1
Description:phosphoenolpyruvate carboxykinase 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_6.03171,213,936 - 171,213,996EPDNEW

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)
Visual CSV TAB Printer
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)
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
BN/SsN (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
F344/NRrrc (MCW)
Visual CSV TAB Printer
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)
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)
FHH/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
FHL/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)
FHL/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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/N (MCW)
Visual CSV TAB Printer
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)
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
MNS/Gib (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
MR/N (MCW)
Visual CSV TAB Printer
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)
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: SBH/Ygl sequenced by MCW
SBH/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
SBN/Ygl (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: 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)
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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/N (MCW)
Visual CSV TAB Printer
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)
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
WKY/NHsd (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
WN/N (MCW)
Visual CSV TAB Printer
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:3267 AgrOrtholog
Ensembl Genes ENSRNOG00000028616 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000030913 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000031586 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.449.10 UniProtKB/Swiss-Prot
  3.90.228.20 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7110760 IMAGE-MGC_LOAD
InterPro PEP_carboxykin_GTP_CS UniProtKB/Swiss-Prot
  PEP_carboxykinase_C UniProtKB/Swiss-Prot
  PEP_carboxykinase_GTP UniProtKB/Swiss-Prot
  PEP_carboxykinase_GTP_C UniProtKB/Swiss-Prot
  PEP_carboxykinase_GTP_N UniProtKB/Swiss-Prot
  PEP_carboxykinase_N UniProtKB/Swiss-Prot
KEGG Report rno:362282 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93820 IMAGE-MGC_LOAD
NCBI Gene 362282 ENTREZGENE
PANTHER PTHR11561 UniProtKB/Swiss-Prot
Pfam PEPCK_GTP UniProtKB/Swiss-Prot
  PEPCK_N UniProtKB/Swiss-Prot
PhenoGen Pck1 PhenoGen
PIRSF PEP_carboxykinase_GTP UniProtKB/Swiss-Prot
PROSITE PEPCK_GTP UniProtKB/Swiss-Prot
Superfamily-SCOP SSF68923 UniProtKB/Swiss-Prot
UniProt P07379 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Pck1  phosphoenolpyruvate carboxykinase 1  Pck1  phosphoenolpyruvate carboxykinase 1 (soluble)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-02-26 Pck1  phosphoenolpyruvate carboxykinase 1 (soluble)  Pck1  phosphoenolpyruvate carboxykinase 1, cytosolic  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Pck1  phosphoenolpyruvate carboxykinase 1, cytosolic  Pck1  phosphoenolpyruvate carboxykinase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Pck1  phosphoenolpyruvate carboxykinase 1      Symbol and Name status set to approved 1299863 APPROVED
2002-06-10 Pck1  phosphoenolpyruvate carboxykinase 1      Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease increased expression is correlated with the growth arrest of hepatoma cells 625518
gene_expression found mainly in liver, kidney and adipocytes 625518
gene_expression expressed in intestine 625518
gene_process an immediate-early response gene for liver regeneration 625518
gene_process functions in gluconeogenesis 625518
gene_regulation regulated by thyroid hormone, prolactin, diacyl glycerol, pH and retinoic acid 625518
gene_regulation regulated by insulin, glucocorticoids, cAMP, and diet 625518