Acsl1 (acyl-CoA synthetase long-chain family member 1) - Rat Genome Database

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Gene: Acsl1 (acyl-CoA synthetase long-chain family member 1) Rattus norvegicus
Analyze
Symbol: Acsl1
Name: acyl-CoA synthetase long-chain family member 1
RGD ID: 2015
Description: Enables arachidonate-CoA ligase activity; oleoyl-CoA ligase activity; and phytanate-CoA ligase activity. Involved in several processes, including fatty acid metabolic process; long-chain fatty-acyl-CoA biosynthetic process; and positive regulation of long-chain fatty acid import across plasma membrane. Located in bounding membrane of organelle; endoplasmic reticulum; and plasma membrane. Biomarker of obesity. Orthologous to human ACSL1 (acyl-CoA synthetase long chain family member 1); PARTICIPATES IN adrenoleukodystrophy pathway; carnitine palmitoyltransferase I deficiency pathway; carnitine-acylcarnitine translocase deficiency; INTERACTS WITH (+)-schisandrin B; (-)-epigallocatechin 3-gallate; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Acas; ACS; Acyl CoA synthetase long chain; Acyl CoA synthetase, long chain; arachidonate--CoA ligase; COAA; Facl2; fatty acid Coenzyme A ligase, long chain 2; LACS 1; long-chain acyl-CoA synthetase 1; long-chain-fatty-acid--CoA ligase 1; long-chain-fatty-acid--CoA ligase, liver isozyme; phytanate--CoA ligase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21645,755,246 - 45,821,541 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1645,755,254 - 45,821,541 (-)Ensembl
Rnor_6.01648,937,456 - 49,003,898 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1648,937,456 - 49,003,246 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01648,653,023 - 48,719,250 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41649,036,892 - 49,081,416 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11649,036,966 - 49,081,491 (-)NCBI
Celera1643,758,263 - 43,802,634 (-)NCBICelera
Cytogenetic Map16q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (EXP)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-nitroquinoline N-oxide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antimony(0)  (ISO)
aristolochic acid  (EXP)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-D-glucosamine 6-sulfate  (ISO)
bexarotene  (EXP)
bezafibrate  (ISO)
bicalutamide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromobenzene  (EXP)
butan-1-ol  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (ISO)
chloroacetaldehyde  (ISO)
chloroform  (EXP)
choline  (ISO)
chromium atom  (ISO)
cidofovir anhydrous  (ISO)
ciglitazone  (ISO)
ciprofibrate  (EXP)
cisplatin  (ISO)
clodronic acid  (ISO)
clofibrate  (EXP,ISO)
Clofop  (ISO)
cobalt dichloride  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (EXP,ISO)
cyproconazole  (ISO)
dehydroepiandrosterone  (EXP)
deoxycholic acid  (ISO)
dexamethasone  (EXP,ISO)
Di-n-hexyl phthalate  (ISO)
diarsenic trioxide  (ISO)
dichlorine  (EXP)
dichloroacetic acid  (ISO)
dioscin  (EXP,ISO)
dioxygen  (ISO)
dipentyl phthalate  (EXP)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
entacapone  (EXP)
entinostat  (ISO)
epoxiconazole  (ISO)
erythromycin estolate  (EXP)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
fenofibrate  (EXP,ISO)
fenoprofen  (EXP)
fenvalerate  (EXP)
flutamide  (EXP,ISO)
fumonisin B1  (ISO)
furan  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
GW 7647  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
ibuprofen  (EXP,ISO)
ifosfamide  (ISO)
indometacin  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
isoprenaline  (EXP)
ivermectin  (ISO)
linalool  (ISO)
lithocholic acid  (ISO)
medroxyprogesterone acetate  (ISO)
menadione  (ISO)
mercury atom  (ISO)
mercury dibromide  (ISO)
mercury(0)  (ISO)
metformin  (EXP,ISO)
methoxyacetic acid  (ISO)
methyl methanesulfonate  (ISO)
Methylazoxymethanol acetate  (EXP)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP,ISO)
nefazodone  (EXP,ISO)
nickel dichloride  (EXP,ISO)
niclosamide  (ISO)
nicotine  (ISO)
nimesulide  (EXP)
nitrofen  (EXP)
O-methyleugenol  (ISO)
obeticholic acid  (ISO)
ochratoxin A  (EXP)
oleic acid  (ISO)
osthole  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
perfluorobutanesulfonic acid  (ISO)
perfluorodecanoic acid  (ISO)
perfluoroheptanoic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorohexanoic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
phlorizin  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
pravastatin  (ISO)
prednisolone  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
progesterone  (EXP,ISO)
promegestone  (ISO)
propiconazole  (ISO)
protein kinase inhibitor  (ISO)
raloxifene  (ISO)
SB 431542  (ISO)
scopoletin  (EXP)
Senkirkine  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
sodium fluoride  (ISO)
sulforaphane  (ISO)
sulindac  (EXP)
tamoxifen  (ISO)
Tanshinone I  (ISO)
tauroursodeoxycholic acid  (EXP)
temozolomide  (ISO)
Tesaglitazar  (EXP)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
tolcapone  (EXP,ISO)
toluene  (ISO)
topotecan  (EXP)
tributylstannane  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
troglitazone  (EXP,ISO)
tungsten  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
zaragozic acid A  (EXP,ISO)
zinc atom  (EXP,ISO)
zinc(0)  (EXP,ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Distler AM, etal., Biochim Biophys Acta. 2007 May;1774(5):628-36. Epub 2007 Mar 28.
2. Durgan DJ, etal., Am J Physiol Heart Circ Physiol. 2006 Jun;290(6):H2480-97. Epub 2006 Jan 20.
3. Ellis JM, etal., Cell Metab. 2010 Jul 7;12(1):53-64. doi: 10.1016/j.cmet.2010.05.012.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Gertow K, etal., Eur J Clin Nutr. 2006 Dec;60(12):1406-13. Epub 2006 Jun 21.
6. Itsuki-Yoneda A, etal., Biosci Biotechnol Biochem. 2007 Feb;71(2):414-20. Epub 2007 Feb 7.
7. KEGG
8. Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
9. Kim JH, etal., J Biol Chem 2001 Jul 6;276(27):24667-73.
10. Klett EL, etal., J Lipid Res. 2017 May;58(5):884-894. doi: 10.1194/jlr.M072512. Epub 2017 Feb 16.
11. Lewin TM, etal., Arch Biochem Biophys. 2002 Aug 15;404(2):263-70.
12. Lewin TM, etal., J Biol Chem 2001 Jul 6;276(27):24674-9.
13. Li LO, etal., J Biol Chem. 2006 Dec 1;281(48):37246-55. Epub 2006 Oct 6.
14. Martin G, etal., J Biol Chem. 2000 Apr 28;275(17):12612-8.
15. MGD data from the GO Consortium
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. Otsuka K, etal., Chem Pharm Bull (Tokyo) 1977 Jun;25(6):1220-4.
18. Pipeline to import KEGG annotations from KEGG into RGD
19. Pipeline to import SMPDB annotations from SMPDB into RGD
20. RGD automated data pipeline
21. RGD automated import pipeline for gene-chemical interactions
22. Ryu MH, etal., Nutrition. 2005 Apr;21(4):537-42.
23. Schneider H, etal., Arch Biochem Biophys. 2014 Mar 15;546:8-18. doi: 10.1016/j.abb.2014.01.025. Epub 2014 Feb 4.
24. Sevoz C, etal., Drug Metab Dispos. 2000 Apr;28(4):398-402.
25. Shimomura I, etal., Biochim Biophys Acta. 1992 Mar 4;1124(2):112-8.
26. Steinberg SJ, etal., Biochem Biophys Res Commun. 1999 Apr 13;257(2):615-21.
27. Steinberg SJ, etal., J Biol Chem. 2000 May 26;275(21):15605-8. doi: 10.1074/jbc.C000015200.
28. Suzuki H, etal., J Biol Chem 1990 May 25;265(15):8681-5.
29. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
30. Tong F, etal., Arch Biochem Biophys. 2006 Mar 1;447(1):46-52. Epub 2006 Jan 23.
31. Tzavara ET, etal., Proc Natl Acad Sci U S A. 1996 Oct 1;93(20):11208-12.
32. Wang YL, etal., Obes Res. 2004 Nov;12(11):1781-8.
33. Watkins PA, etal., J Lipid Res. 1996 Nov;37(11):2288-95.
34. Watkins PA, etal., J Lipid Res. 2007 Dec;48(12):2736-50. Epub 2007 Aug 30.
35. Zhan T, etal., PLoS One. 2012;7(9):e45087. doi: 10.1371/journal.pone.0045087. Epub 2012 Sep 14.
Additional References at PubMed
PMID:8973631   PMID:14622223   PMID:14651853   PMID:15051725   PMID:15093965   PMID:18614015   PMID:19946888   PMID:20667975   PMID:21242590   PMID:22022213   PMID:24095834   PMID:24269233  
PMID:26136511   PMID:26316108   PMID:27136724   PMID:33437196  


Genomics

Candidate Gene Status
Acsl1 is a candidate Gene for QTL Arunc2
Acsl1 is a candidate Gene for QTL Arunc1
Comparative Map Data
Acsl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21645,755,246 - 45,821,541 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1645,755,254 - 45,821,541 (-)Ensembl
Rnor_6.01648,937,456 - 49,003,898 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1648,937,456 - 49,003,246 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01648,653,023 - 48,719,250 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41649,036,892 - 49,081,416 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11649,036,966 - 49,081,491 (-)NCBI
Celera1643,758,263 - 43,802,634 (-)NCBICelera
Cytogenetic Map16q11NCBI
ACSL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4184,755,595 - 184,826,818 (-)EnsemblGRCh38hg38GRCh38
GRCh384184,755,595 - 184,826,593 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh374185,676,749 - 185,747,122 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364185,913,743 - 185,984,209 (-)NCBINCBI36hg18NCBI36
Build 344186,051,898 - 186,122,364NCBI
Celera4183,005,275 - 183,075,742 (-)NCBI
Cytogenetic Map4q35.1NCBI
HuRef4181,430,075 - 181,478,058 (-)NCBIHuRef
CHM1_14185,652,944 - 185,723,638 (-)NCBICHM1_1
Acsl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39846,924,074 - 46,989,088 (+)NCBIGRCm39mm39
GRCm39 Ensembl846,924,074 - 46,989,088 (+)Ensembl
GRCm38846,471,037 - 46,536,051 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl846,471,037 - 46,536,051 (+)EnsemblGRCm38mm10GRCm38
MGSCv37847,556,396 - 47,621,404 (+)NCBIGRCm37mm9NCBIm37
MGSCv36847,969,859 - 48,034,867 (+)NCBImm8
Celera849,153,706 - 49,218,586 (+)NCBICelera
Cytogenetic Map8B1.1NCBI
Acsl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540324,190,674 - 24,236,780 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540324,190,674 - 24,235,354 (+)NCBIChiLan1.0ChiLan1.0
ACSL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14189,145,403 - 189,216,458 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4189,145,403 - 189,198,646 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04176,920,811 - 176,991,495 (-)NCBIMhudiblu_PPA_v0panPan3
ACSL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11645,735,675 - 45,806,235 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1645,735,703 - 45,804,970 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1646,229,060 - 46,299,523 (+)NCBI
ROS_Cfam_1.01647,951,751 - 48,022,201 (+)NCBI
UMICH_Zoey_3.11645,918,792 - 45,989,322 (+)NCBI
UNSW_CanFamBas_1.01646,531,804 - 46,602,185 (+)NCBI
UU_Cfam_GSD_1.01646,664,118 - 46,734,659 (+)NCBI
Acsl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494333,625,129 - 33,684,355 (-)NCBI
SpeTri2.0NW_0049365544,425,518 - 4,484,853 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ACSL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1545,866,851 - 46,090,099 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11545,866,858 - 45,936,327 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21552,526,606 - 52,595,992 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ACSL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17130,712,633 - 130,783,360 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl7130,712,308 - 130,763,756 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037110,965,130 - 111,036,287 (-)NCBIVero_WHO_p1.0
Acsl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476915,503,757 - 15,584,741 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
AW533279  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21645,755,774 - 45,755,985 (+)MAPPERmRatBN7.2
Rnor_6.01648,937,985 - 48,938,195NCBIRnor6.0
Rnor_5.01648,653,552 - 48,653,762UniSTSRnor5.0
RGSC_v3.41649,037,421 - 49,037,631UniSTSRGSC3.4
Celera1643,758,792 - 43,759,002UniSTS
RH 3.4 Map16448.6UniSTS
Cytogenetic Map16q11UniSTS
RH128996  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21645,755,331 - 45,755,551 (+)MAPPERmRatBN7.2
Rnor_6.01648,937,542 - 48,937,761NCBIRnor6.0
Rnor_5.01648,653,109 - 48,653,328UniSTSRnor5.0
RGSC_v3.41649,036,978 - 49,037,197UniSTSRGSC3.4
Celera1643,758,349 - 43,758,568UniSTS
Cytogenetic Map16q11UniSTS
RH141505  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21645,769,235 - 45,769,442 (+)MAPPERmRatBN7.2
Rnor_6.01648,951,447 - 48,951,653NCBIRnor6.0
Rnor_5.01648,666,988 - 48,667,194UniSTSRnor5.0
RGSC_v3.41649,050,883 - 49,051,089UniSTSRGSC3.4
Celera1643,772,153 - 43,772,359UniSTS
RH 3.4 Map16448.9UniSTS
Cytogenetic Map16q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162173597566735975Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)163195152060148445Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
631833Sach2Saccharin preference QTL 240.01consumption behavior trait (VT:0002069)calculated saccharin drink intake rate (CMO:0001613)164302484250166018Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:213
Count of miRNA genes:146
Interacting mature miRNAs:182
Transcripts:ENSRNOT00000014235
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 5 5 5
Medium 3 43 52 36 19 36 8 11 62 35 33 11 8
Low 12 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012820 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039094202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC117951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D90109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HB881279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC938688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000282 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000014235   ⟹   ENSRNOP00000014235
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1645,755,254 - 45,821,541 (-)Ensembl
Rnor_6.0 Ensembl1648,937,456 - 48,981,980 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089501   ⟹   ENSRNOP00000072677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1645,755,254 - 45,821,541 (-)Ensembl
Rnor_6.0 Ensembl1648,938,935 - 49,003,246 (-)Ensembl
RefSeq Acc Id: NM_012820   ⟹   NP_036952
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,246 - 45,799,770 (-)NCBI
Rnor_6.01648,937,456 - 48,981,980 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
RGSC_v3.41649,036,892 - 49,081,416 (-)RGD
Celera1643,758,263 - 43,802,634 (-)RGD
Sequence:
RefSeq Acc Id: XM_006253122   ⟹   XP_006253184
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,254 - 45,821,217 (-)NCBI
Rnor_6.01648,937,464 - 49,003,551 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253123   ⟹   XP_006253185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,250 - 45,821,541 (-)NCBI
Rnor_6.01648,937,464 - 49,003,898 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253124   ⟹   XP_006253186
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,254 - 45,801,543 (-)NCBI
Rnor_6.01648,937,464 - 48,983,717 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253125   ⟹   XP_006253187
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,254 - 45,814,554 (-)NCBI
Rnor_6.01648,937,464 - 48,996,935 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253126   ⟹   XP_006253188
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,254 - 45,804,405 (-)NCBI
Rnor_6.01648,937,464 - 48,986,597 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253127   ⟹   XP_006253189
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,254 - 45,801,588 (-)NCBI
Rnor_6.01648,937,464 - 48,983,798 (-)NCBI
Rnor_5.01648,653,023 - 48,719,250 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039094200   ⟹   XP_038950128
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,429 - 45,821,492 (-)NCBI
RefSeq Acc Id: XM_039094201   ⟹   XP_038950129
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,250 - 45,821,536 (-)NCBI
RefSeq Acc Id: XM_039094202   ⟹   XP_038950130
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21645,755,254 - 45,821,224 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036952   ⟸   NM_012820
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253185   ⟸   XM_006253123
- Peptide Label: isoform X1
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253184   ⟸   XM_006253122
- Peptide Label: isoform X1
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253187   ⟸   XM_006253125
- Peptide Label: isoform X1
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253188   ⟸   XM_006253126
- Peptide Label: isoform X1
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253189   ⟸   XM_006253127
- Peptide Label: isoform X1
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253186   ⟸   XM_006253124
- Peptide Label: isoform X1
- UniProtKB: P18163 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000072677   ⟸   ENSRNOT00000089501
RefSeq Acc Id: ENSRNOP00000014235   ⟸   ENSRNOT00000014235
RefSeq Acc Id: XP_038950129   ⟸   XM_039094201
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038950130   ⟸   XM_039094202
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038950128   ⟸   XM_039094200
- Peptide Label: isoform X2

Transcriptome

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

Promoters
RGD ID:13700097
Promoter ID:EPDNEW_R10621
Type:multiple initiation site
Name:Acsl1_1
Description:acyl-CoA synthetase long-chain family member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10622  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01648,982,003 - 48,982,063EPDNEW
RGD ID:13700105
Promoter ID:EPDNEW_R10622
Type:initiation region
Name:Acsl1_2
Description:acyl-CoA synthetase long-chain family member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10621  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01649,003,236 - 49,003,296EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2015 AgrOrtholog
Ensembl Genes ENSRNOG00000010633 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000014235 UniProtKB/Swiss-Prot
  ENSRNOP00000072677 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000014235 UniProtKB/Swiss-Prot
  ENSRNOT00000089501 UniProtKB/Swiss-Prot
InterPro AMP-binding_CS UniProtKB/Swiss-Prot
  AMP-dep_Synth/Lig UniProtKB/Swiss-Prot
KEGG Report rno:25288 UniProtKB/Swiss-Prot
NCBI Gene 25288 ENTREZGENE
Pfam AMP-binding UniProtKB/Swiss-Prot
PhenoGen Acsl1 PhenoGen
PROSITE AMP_BINDING UniProtKB/Swiss-Prot
TIGR TC217023
UniProt ACSL1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Acsl1  acyl-CoA synthetase long-chain family member 1  Facl2  fatty acid Coenzyme A ligase, long chain 2  Symbol and Name updated 1299863 APPROVED
2002-06-10 Facl2  fatty acid Coenzyme A ligase, long chain 2      Symbol and Name status set to approved 70586 APPROVED
2001-12-12 Facl2  fatty acid Coenzyme A ligase, long chain 2      Symbol and Name updated to reflect Human and Mouse nomenclature 69665 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA increases in response to high carbohydrate or high fat diets 70279
gene_expression mRNA expressed in liver, heart and epididymal adipose tissues; smaller amount found in brain, small intestine and lung 70279
gene_function catalyzes the ligation of long chain fatty acids with coenzyme A to produce long chain acyl-CoAs 70279
gene_process plays a key role in lipid synthesis and in fatty acid degradation 70279
gene_process involved in energy use via b-oxidation and the synthesis of triacylglycerol, phospholipids, cholesterol esters, and sphingomyelin 68670
gene_product member of the luciferase superfamily 70279
gene_protein predicted 699 amino acids and 78 kDa 70279
gene_transcript 3.8 kbp mRNA 70279