Cpt1a (carnitine palmitoyltransferase 1A) - Rat Genome Database

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Gene: Cpt1a (carnitine palmitoyltransferase 1A) Rattus norvegicus
Analyze
Symbol: Cpt1a
Name: carnitine palmitoyltransferase 1A
RGD ID: 2396
Description: Exhibits carnitine O-palmitoyltransferase activity and identical protein binding activity. Involved in several processes, including fatty acid metabolic process; liver regeneration; and response to tetrachloromethane. Localizes to integral component of mitochondrial outer membrane. Biomarker of alcoholic hepatitis; obesity; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in carnitine palmitoyltransferase I deficiency and lipid metabolism disorder. Orthologous to human CPT1A (carnitine palmitoyltransferase 1A); PARTICIPATES IN adenosine monophosphate-activated protein kinase (AMPK) signaling pathway; carnitine palmitoyltransferase I deficiency pathway; ethylmalonic encephalopathy pathway; INTERACTS WITH (+)-schisandrin B; (+)-taxifolin; (R)-carnitine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: carnitine O-palmitoyltransferase 1, liver isoform; carnitine O-palmitoyltransferase I, liver isoform; Carnitine palmitoyltransferase 1 alpha liver isoform; Carnitine palmitoyltransferase 1 alpha, liver isoform; Carnitine palmitoyltransferase 1, liver; carnitine palmitoyltransferase 1A liver; carnitine palmitoyltransferase 1a, liver; CPT I; CPT-Ia; CPT1-L; CPTI-L
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
mRatBN7.21200,564,634 - 200,627,059 (+)NCBI
Rnor_6.0 Ensembl1218,569,510 - 218,629,678 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01218,568,157 - 218,629,679 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01225,436,031 - 225,497,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41205,852,800 - 205,912,972 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11206,006,198 - 206,066,422 (+)NCBI
Celera1198,121,771 - 198,182,510 (+)NCBICelera
Cytogenetic Map1q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (ISO)
(+)-dexrazoxane  (ISO)
(+)-schisandrin B  (EXP)
(+)-taxifolin  (EXP)
(R)-carnitine  (EXP,ISO)
(R)-lipoic acid  (EXP)
(R)-noradrenaline  (EXP)
(S)-naringenin  (EXP)
1,2-dimethylhydrazine  (ISO)
1,4-benzoquinone  (ISO)
17alpha-ethynylestradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-chloroethanol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,3',5-triiodo-L-thyronine  (EXP,ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
AICA ribonucleotide  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-linolenic acid  (ISO)
AM-251  (ISO)
amiodarone  (ISO)
amlexanox  (ISO)
antirheumatic drug  (ISO)
arachidonic acid  (ISO)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (EXP)
atrazine  (ISO)
benzamides  (ISO)
benzbromarone  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
benzylpenicillin  (ISO)
berberine  (ISO)
beta-hexachlorocyclohexane  (ISO)
bezafibrate  (EXP,ISO)
bifenthrin  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
cadmium atom  (EXP)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calciol  (EXP)
capsaicin  (EXP,ISO)
captan  (ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (ISO)
chloroethene  (ISO)
chlorpyrifos  (ISO)
cholesterol  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
clofibrate  (EXP,ISO)
clofibric acid  (ISO)
Clofop  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
corticosterone  (EXP)
cortisol  (ISO)
curcumin  (ISO)
cyclosporin A  (EXP)
cypermethrin  (ISO)
D-glucose  (ISO)
D-penicillamine  (EXP,ISO)
daidzein  (ISO)
DDE  (ISO)
decabromodiphenyl ether  (EXP)
dehydroepiandrosterone sulfate  (EXP)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diclofenac  (EXP,ISO)
dihydroartemisinin  (EXP,ISO)
dioscin  (EXP,ISO)
dioxygen  (ISO)
dobutamine  (EXP)
dopamine  (EXP)
dorsomorphin  (EXP,ISO)
doxorubicin  (ISO)
dronedarone  (ISO)
entinostat  (ISO)
erythromycin A  (ISO)
ethanol  (EXP,ISO)
farnesol  (ISO)
fenamidone  (ISO)
fenofibrate  (EXP,ISO)
flutamide  (EXP,ISO)
folic acid  (EXP,ISO)
formaldehyde  (ISO)
fructose  (EXP)
gadolinium trichloride  (EXP)
Gastrodin  (ISO)
gemfibrozil  (EXP)
genistein  (ISO)
gentamycin  (EXP)
glucagon  (ISO)
glucose  (ISO)
glutathione  (EXP)
glycine betaine  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
guggulsterone  (EXP,ISO)
GW 4064  (ISO)
GW 501516  (ISO)
GW 7647  (EXP,ISO)
Heptachlor epoxide  (ISO)
hexadecanoic acid  (EXP,ISO)
hydralazine  (EXP)
indometacin  (ISO)
isoniazide  (ISO)
ivermectin  (ISO)
kaempferol  (EXP)
L-methionine  (ISO)
lamivudine  (ISO)
leflunomide  (EXP,ISO)
levofloxacin  (EXP)
linoleic acid  (EXP)
lipoic acid  (EXP)
lipopolysaccharide  (EXP,ISO)
liraglutide  (ISO)
losartan  (EXP)
mangiferin  (EXP)
mercury dibromide  (ISO)
metformin  (EXP)
methapyrilene  (EXP,ISO)
methotrexate  (ISO)
metoprolol  (EXP)
miquelianin  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (EXP,ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
naringin  (ISO)
nefazodone  (EXP)
nickel dichloride  (EXP)
nimesulide  (EXP)
Nonylphenol  (EXP)
obeticholic acid  (EXP,ISO)
oleic acid  (EXP,ISO)
orlistat  (ISO)
osthole  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (ISO)
palmitoyl-CoA  (EXP)
paracetamol  (EXP)
paraquat  (EXP)
paricalcitol  (ISO)
penconazole  (ISO)
perflubutane  (ISO)
perfluorobutyric acid  (ISO)
perfluorodecanoic acid  (ISO)
perfluorododecanoic acid  (ISO)
perfluoroheptanoic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorohexanoic acid  (ISO)
perfluorononanoic acid  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
perfluoroundecanoic acid  (ISO)
permethrin  (ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
phenylmercury acetate  (ISO)
phlorizin  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
picrotoxin  (EXP)
pirinixic acid  (EXP,ISO)
propiconazole  (EXP,ISO)
pterostilbene  (EXP)
puerarin  (ISO)
quercetin  (EXP,ISO)
rebaudioside A  (ISO)
resveratrol  (EXP,ISO)
rifampicin  (ISO)
rimonabant  (EXP)
rotenone  (EXP,ISO)
SB 431542  (ISO)
sevoflurane  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (ISO)
starch  (ISO)
stavudine  (ISO)
steviol  (ISO)
stevioside  (ISO)
streptozocin  (EXP,ISO)
sucrose  (ISO)
sulforaphane  (EXP)
tamoxifen  (ISO)
taurine  (EXP)
tectoridin  (ISO)
Tesaglitazar  (EXP,ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP)
tetracycline  (EXP,ISO)
tetrahydropalmatine  (ISO)
tetrathiomolybdate(2-)  (EXP)
thiacloprid  (ISO)
thiophanate-methyl  (ISO)
topotecan  (EXP)
triadimefon  (EXP)
tributyl phosphate  (ISO)
tributylstannane  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
triphenyl phosphate  (EXP,ISO)
Triptolide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tris(2-chloroethyl) phosphate  (ISO)
troglitazone  (EXP,ISO)
trovafloxacin  (EXP)
urea  (ISO)
valproic acid  (EXP,ISO)
vanadyl sulfate  (EXP)
vinclozolin  (EXP)
vitamin E  (ISO)
wortmannin  (EXP)
zidovudine  (ISO)
zinc atom  (EXP,ISO)
zinc sulfate  (EXP)
zinc(0)  (EXP,ISO)
ziram  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. Akkaoui M, etal., Biochem J. 2009 May 27;420(3):429-38.
2. Borthwick K, etal., J Biol Chem. 2006 Nov 3;281(44):32946-52. Epub 2006 Aug 14.
3. Broadway NM, etal., Biochem J. 2003 Feb 15;370(Pt 1):223-31.
4. Cohen I, etal., J Biol Chem. 2001 Feb 16;276(7):5403-11. Epub 2000 Nov 21.
5. de Vries Y, etal., Biochemistry 1997 Apr 29;36(17):5285-92.
6. Dharancy S, etal., Gastroenterology. 2005 Feb;128(2):334-42.
7. Esser V, etal., J Biol Chem 1993 Mar 15;268(8):5817-22.
8. Forcheron F, etal., Obesity (Silver Spring). 2009 Jul;17(7):1381-9. Epub 2009 Feb 19.
9. Fraser F, etal., Biochem J 1997 May 1;323 ( Pt 3):711-8.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GOA data from the GO Consortium
12. Huo X, etal., Biomed Pharmacother. 2020 Feb;122:109354. doi: 10.1016/j.biopha.2019.109354. Epub 2019 Dec 30.
13. IJlst L, etal., J Clin Invest. 1998 Aug 1;102(3):527-31.
14. Jenei ZA, etal., J Biol Chem. 2009 Mar 13;284(11):6988-97. Epub 2009 Jan 9.
15. KEGG
16. Kerner J, etal., J Biol Chem. 2004 Sep 24;279(39):41104-13. Epub 2004 Jul 9.
17. Lee JS, etal., Sci Rep. 2019 Nov 20;9(1):17167. doi: 10.1038/s41598-019-53603-6.
18. Lee K, etal., J Biol Chem. 2011 Jul 22;286(29):25655-62. doi: 10.1074/jbc.M111.228692. Epub 2011 May 26.
19. Li PP, etal., Br J Pharmacol. 2006 Jul;148(5):610-8. Epub 2006 Jun 5.
20. Lin L, etal., J Ethnopharmacol. 2020 Apr 24;252:112577. doi: 10.1016/j.jep.2020.112577. Epub 2020 Jan 15.
21. Liu ME, etal., J Sci Food Agric. 2020 Apr;100(6):2380-2388. doi: 10.1002/jsfa.10246. Epub 2020 Feb 9.
22. Louet JF, etal., Biochem J 2001 Feb 15;354(Pt 1):189-97.
23. Louet JF, etal., J Biol Chem 2002 Oct 11;277(41):37991-8000.
24. MGD data from the GO Consortium
25. Morillas M, etal., Biochem J. 2004 May 1;379(Pt 3):777-84.
26. Morillas M, etal., J Biol Chem. 2003 Mar 14;278(11):9058-63. Epub 2002 Dec 23.
27. Nakamura S, etal., J Biol Chem. 2009 May 29;284(22):14809-18. doi: 10.1074/jbc.M901488200. Epub 2009 Mar 30.
28. Napal L, etal., J Biol Chem 2003 Sep 5;278(36):34084-9. Epub 2003 Jun 25.
29. NCBI rat LocusLink and RefSeq merged data July 26, 2002
30. Nicot C, etal., J Biol Chem 2002 Mar 22;277(12):10044-9. Epub 2002 Jan 14.
31. Obici S, etal., Nat Med. 2003 Jun;9(6):756-61. Epub 2003 May 18.
32. OMIM Disease Annotation Pipeline
33. Pan Y, etal., J Biol Chem. 2002 Dec 6;277(49):47184-9. Epub 2002 Sep 25.
34. Park EA, etal., Biochem J 1998 Feb 15;330 ( Pt 1):217-24.
35. Pipeline to import KEGG annotations from KEGG into RGD
36. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
37. Pipeline to import SMPDB annotations from SMPDB into RGD
38. Rao JN, etal., J Biol Chem. 2011 Dec 9;286(49):42545-54. doi: 10.1074/jbc.M111.306951. Epub 2011 Oct 11.
39. RGD automated data pipeline
40. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
41. RGD automated import pipeline for gene-chemical interactions
42. Rubi B, etal., Biochem J 2002 May 15;364(Pt 1):219-26.
43. Rufer AC, etal., Cell Mol Life Sci. 2009 Aug;66(15):2489-501. Epub 2009 May 9.
44. Sebastian D, etal., J Lipid Res. 2009 May 9.
45. Stefanovic-Racic M, etal., Am J Physiol Endocrinol Metab. 2008 May;294(5):E969-77. Epub 2008 Mar 18.
46. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
47. Suolang PC, etal., J Ethnopharmacol. 2019 May 23;236:316-325. doi: 10.1016/j.jep.2019.03.006. Epub 2019 Mar 6.
48. Treber M, etal., J Biol Chem. 2003 Mar 28;278(13):11145-9. Epub 2003 Jan 22.
49. Wu X, etal., Am J Physiol Endocrinol Metab. 2019 Sep 1;317(3):E436-E445. doi: 10.1152/ajpendo.00454.2018. Epub 2019 Jun 18.
50. Wu Z, etal., Food Funct. 2020 Jan 29;11(1):799-812. doi: 10.1039/c9fo02262g.
51. Xu W, etal., Toxicol Appl Pharmacol. 2017 Jan 15;315:23-34. doi: 10.1016/j.taap.2016.12.001. Epub 2016 Dec 6.
52. Yang RX, etal., Lipids Health Dis. 2019 Oct 21;18(1):179. doi: 10.1186/s12944-019-1118-0.
53. Zhang YP, etal., Curr Med Sci. 2019 Feb;39(1):37-43. doi: 10.1007/s11596-019-1997-3. Epub 2019 Mar 13.
Additional References at PubMed
PMID:7892212   PMID:8348957   PMID:8449947   PMID:8636126   PMID:8889548   PMID:11350182   PMID:11553629   PMID:12865426   PMID:12920182   PMID:14651853   PMID:15254779   PMID:15469941  
PMID:16177188   PMID:17062841   PMID:17239528   PMID:17650509   PMID:18385088   PMID:18614015   PMID:18706397   PMID:19073774   PMID:19946888   PMID:21492153   PMID:21541677   PMID:21909411  
PMID:21917985   PMID:22322067   PMID:22930490   PMID:22982985   PMID:23736540   PMID:23815800   PMID:26092479   PMID:26519879   PMID:27438137   PMID:27923787   PMID:28330968   PMID:28993954  
PMID:30605728   PMID:30764676   PMID:31405564  


Genomics

Comparative Map Data
Cpt1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21200,564,634 - 200,627,059 (+)NCBI
Rnor_6.0 Ensembl1218,569,510 - 218,629,678 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01218,568,157 - 218,629,679 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01225,436,031 - 225,497,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41205,852,800 - 205,912,972 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11206,006,198 - 206,066,422 (+)NCBI
Celera1198,121,771 - 198,182,510 (+)NCBICelera
Cytogenetic Map1q42NCBI
CPT1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1168,754,620 - 68,844,410 (-)EnsemblGRCh38hg38GRCh38
GRCh381168,754,620 - 68,844,410 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371168,522,088 - 68,609,384 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361168,278,664 - 68,365,881 (-)NCBINCBI36hg18NCBI36
Build 341168,281,656 - 68,365,881NCBI
Celera1165,858,303 - 65,945,748 (-)NCBI
Cytogenetic Map11q13.3NCBI
HuRef1164,858,312 - 64,945,656 (-)NCBIHuRef
CHM1_11168,405,839 - 68,493,144 (-)NCBICHM1_1
Cpt1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39193,372,328 - 3,435,735 (+)NCBIGRCm39mm39
GRCm39 Ensembl193,372,334 - 3,435,733 (+)Ensembl
GRCm38193,322,326 - 3,385,735 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl193,322,334 - 3,385,733 (+)EnsemblGRCm38mm10GRCm38
MGSCv37193,323,301 - 3,385,733 (+)NCBIGRCm37mm9NCBIm37
MGSCv36193,334,513 - 3,385,732 (+)NCBImm8
Celera193,192,535 - 3,255,204 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map193.08NCBI
Cpt1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542217,109,256 - 17,159,838 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542217,105,887 - 17,159,696 (+)NCBIChiLan1.0ChiLan1.0
CPT1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11167,144,803 - 67,205,481 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1167,144,736 - 67,205,481 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01163,841,028 - 63,928,242 (-)NCBIMhudiblu_PPA_v0panPan3
CPT1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11849,136,691 - 49,190,117 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1849,136,691 - 49,190,117 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1847,743,088 - 47,799,620 (+)NCBI
ROS_Cfam_1.01849,940,828 - 50,105,306 (+)NCBI
UMICH_Zoey_3.11849,269,286 - 49,326,013 (+)NCBI
UNSW_CanFamBas_1.01848,842,887 - 48,899,833 (+)NCBI
UU_Cfam_GSD_1.01849,588,821 - 49,693,664 (+)NCBI
Cpt1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049475,055,750 - 5,092,752 (+)NCBI
SpeTri2.0NW_0049365991,491,934 - 1,535,101 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPT1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl24,233,099 - 4,293,984 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.124,250,642 - 4,293,914 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.222,844,854 - 2,874,141 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CPT1A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.115,704,275 - 5,784,077 (+)NCBI
ChlSab1.1 Ensembl15,730,853 - 5,784,337 (+)Ensembl
Cpt1a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476718,109,011 - 18,161,378 (+)NCBI

Position Markers
D1Got189  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01218,614,124 - 218,614,387NCBIRnor6.0
Rnor_5.01225,482,031 - 225,482,294UniSTSRnor5.0
RGSC_v3.41205,897,416 - 205,897,680RGDRGSC3.4
RGSC_v3.41205,897,417 - 205,897,680UniSTSRGSC3.4
RGSC_v3.11206,050,870 - 206,051,133RGD
Celera1198,166,955 - 198,167,218UniSTS
RH 3.4 Map11560.5RGD
RH 3.4 Map11560.5UniSTS
RH 2.0 Map11113.7RGD
Cytogenetic Map1q43UniSTS
AU049995  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01218,622,535 - 218,622,666NCBIRnor6.0
Rnor_5.01225,490,442 - 225,490,573UniSTSRnor5.0
RGSC_v3.41205,905,828 - 205,905,959UniSTSRGSC3.4
Celera1198,175,366 - 198,175,497UniSTS
Cytogenetic Map1q43UniSTS
RH128242  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01218,629,370 - 218,629,553NCBIRnor6.0
Rnor_5.01225,497,277 - 225,497,460UniSTSRnor5.0
RGSC_v3.41205,912,663 - 205,912,846UniSTSRGSC3.4
Celera1198,182,201 - 198,182,384UniSTS
RH 3.4 Map11522.4UniSTS
Cytogenetic Map1q43UniSTS
AA960192  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01218,629,441 - 218,629,549NCBIRnor6.0
Rnor_5.01225,497,348 - 225,497,456UniSTSRnor5.0
RGSC_v3.41205,912,734 - 205,912,842UniSTSRGSC3.4
Celera1198,182,272 - 198,182,380UniSTS
Cytogenetic Map1q43UniSTS
PMC21059P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01218,628,391 - 218,629,018NCBIRnor6.0
Rnor_5.01225,496,298 - 225,496,925UniSTSRnor5.0
RGSC_v3.41205,911,684 - 205,912,311UniSTSRGSC3.4
Celera1198,181,222 - 198,181,849UniSTS
Cytogenetic Map1q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1217372257244992610Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1193220385238220385Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1215711860260711860Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1189514504234514504Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1198585664236763415Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1215828102260828102Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1216324817261324817Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1197963658242963658Rat
1331790Bp201Blood pressure QTL 2013.127arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1216213318245529710Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1205603081244401301Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1197187728230420772Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1215711860258765521Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1189170900234170900Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1189170900234170900Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1189170900234170900Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1189170900234170900Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1189170900234170900Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1189170900234170900Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198446729240017341Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291281795785Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1210960636236763528Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1215828102260828102Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1215684498260684498Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1194554354239554354Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1213476630278978026Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1201146802241482368Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1192639698278228889Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1185390068230390068Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1201358068221983732Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1196738546241738546Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1210360774264802828Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1198655722244992610Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
2314011Gluco56Glucose level QTL 56blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1217776868220128172Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1190282646235282646Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1216324817261324817Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1188850303233850303Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1215828102260828102Rat
6480773Gluco64Glucose level QTL 645.09blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291218614387Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1206950905218614387Rat
6480783Insul19Insulin level QTL 194.33blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1215494321218614387Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1197187728238220385Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1202571665264802994Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1210652654255652654Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1194872362239872362Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:293
Count of miRNA genes:182
Interacting mature miRNAs:226
Transcripts:ENSRNOT00000019652
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
Medium 3 41 39 23 19 23 1 1 56 35 33 11 1
Low 2 18 18 18 7 10 18 8 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019652   ⟹   ENSRNOP00000019652
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1218,569,510 - 218,629,678 (+)Ensembl
RefSeq Acc Id: NM_031559   ⟹   NP_113747
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21200,566,888 - 200,627,059 (+)NCBI
Rnor_6.01218,569,510 - 218,629,679 (+)NCBI
Rnor_5.01225,436,031 - 225,497,586 (+)NCBI
RGSC_v3.41205,852,800 - 205,912,972 (+)RGD
Celera1198,121,771 - 198,182,510 (+)RGD
Sequence:
RefSeq Acc Id: XM_006230695   ⟹   XP_006230757
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21200,565,476 - 200,627,059 (+)NCBI
Rnor_6.01218,568,157 - 218,629,679 (+)NCBI
Rnor_5.01225,436,031 - 225,497,586 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588837   ⟹   XP_017444326
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21200,565,643 - 200,627,059 (+)NCBI
Rnor_6.01218,568,265 - 218,629,679 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017588838   ⟹   XP_017444327
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01218,599,431 - 218,629,679 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039102321   ⟹   XP_038958249
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21200,564,634 - 200,627,059 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_113747   ⟸   NM_031559
- UniProtKB: P32198 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006230757   ⟸   XM_006230695
- Peptide Label: isoform X1
- UniProtKB: P32198 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017444326   ⟸   XM_017588837
- Peptide Label: isoform X1
- UniProtKB: P32198 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017444327   ⟸   XM_017588838
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000019652   ⟸   ENSRNOT00000019652
RefSeq Acc Id: XP_038958249   ⟸   XM_039102321
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:13690595
Promoter ID:EPDNEW_R1119
Type:single initiation site
Name:Cpt1a_1
Description:carnitine palmitoyltransferase 1A
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_6.01218,569,419 - 218,569,479EPDNEW

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)
Visual CSV TAB Printer
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)
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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)
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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
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 218601125 218601126 G C snv Buf/N (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 205884418 205884419 G C snv BUF/N (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2396 AgrOrtholog
Ensembl Genes ENSRNOG00000014254 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000019652 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000019652 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.559.40 UniProtKB/Swiss-Prot
  3.30.559.70 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7105825 IMAGE-MGC_LOAD
InterPro Carn_acyl_trans UniProtKB/Swiss-Prot
  Cho/carn_acyl_trans UniProtKB/Swiss-Prot
  Cho/carn_acyl_trans_1 UniProtKB/Swiss-Prot
  Cho/carn_acyl_trans_2 UniProtKB/Swiss-Prot
  CPT_N UniProtKB/Swiss-Prot
KEGG Report rno:25757 UniProtKB/Swiss-Prot
MGC_CLONE MGC:91635 IMAGE-MGC_LOAD
NCBI Gene 25757 ENTREZGENE
PANTHER PTHR22589 UniProtKB/Swiss-Prot
Pfam Carn_acyltransf UniProtKB/Swiss-Prot
  CPT_N UniProtKB/Swiss-Prot
PhenoGen Cpt1a PhenoGen
PROSITE ACYLTRANSF_C_1 UniProtKB/Swiss-Prot
  ACYLTRANSF_C_2 UniProtKB/Swiss-Prot
UniProt B7ZDJ2_RAT UniProtKB/TrEMBL
  CPT1A_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary P97780 UniProtKB/Swiss-Prot
  Q6IMZ4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-01 Cpt1a  carnitine palmitoyltransferase 1A  Cpt1a  carnitine palmitoyltransferase 1a, liver  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Cpt1a  carnitine palmitoyltransferase 1a, liver    carnitine palmitoyltransferase 1, liver  Name updated 1299863 APPROVED
2002-06-10 Cpt1a  carnitine palmitoyltransferase 1      Name updated 70584 APPROVED
2001-10-23 Cpt1a  Carnitine palmitoyltransferase 1, liver      Name updated to reflect Human and Mouse nomenclature 68913 APPROVED
2001-10-23 Cpt1a  Carnitine palmitoyltransferase 1 alpha, liver isoform      Name updated to reflect Human and Mouse nomenclature 68913 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localizes to the outer mitochondrial membrane 62419
gene_function converts long chain acyl-CoA to acylcarnitines 62419
gene_process regulates long chain fatty acid oxidation 62419
gene_process is necessary for proper insulin secretion 1298597
gene_regulation tightly regulated by its physiological inhibitor, malonyl-CoA 62419
gene_regulation expression in the liver is induced by long chain fatty acids and lipid-lowering compounds like clofibrate 628446
gene_transcript two cDNA isoforms exist, a hepatic and a muscle isoform 1298568