Acsl3 (acyl-CoA synthetase long-chain family member 3) - Rat Genome Database
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Gene: Acsl3 (acyl-CoA synthetase long-chain family member 3) Rattus norvegicus
Analyze
Symbol: Acsl3
Name: acyl-CoA synthetase long-chain family member 3
RGD ID: 70552
Description: Exhibits arachidonate-CoA ligase activity. Involved in several processes, including brain development; fatty acid metabolic process; and response to nutrient. Predicted to localize to several cellular components, including Golgi apparatus; lipid droplet; and perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in asthma; breast cancer; and prostate cancer. Orthologous to human ACSL3 (acyl-CoA synthetase long chain family member 3); PARTICIPATES IN fatty acid beta degradation pathway; eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; fatty acid metabolic pathway; INTERACTS WITH 1-benzylpiperazine; 1-naphthyl isothiocyanate; 1-nitropropane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Acs3; arachidonate--CoA ligase; brain acyl-CoA synthetase II; Facl3; fatty acid Coenzyme A ligase, long chain 3; LACS 3; long-chain acyl-CoA synthetase 3; long-chain-fatty-acid--CoA ligase 3
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
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2980,140,996 - 80,164,636 (+)NCBI
Rnor_6.0 Ensembl984,569,597 - 84,593,565 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0984,569,601 - 84,593,565 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0984,301,912 - 84,351,516 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4978,083,239 - 78,106,933 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1978,266,656 - 78,290,352 (+)NCBI
Celera977,647,726 - 77,671,370 (+)NCBICelera
Cytogenetic Map9q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-benzylpiperazine  (EXP)
1-naphthyl isothiocyanate  (EXP)
1-nitropropane  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-diaminotoluene  (EXP)
2,4-dinitrotoluene  (EXP)
2,6-diaminotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-nitro-p-phenylenediamine  (EXP)
2-nitropropane  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
4-acetylaminofluorene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-nitro-1,2-phenylenediamine  (EXP)
5-aza-2'-deoxycytidine  (ISO)
acrolein  (ISO)
aflatoxin B1  (EXP,ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
buspirone  (EXP)
caffeine  (ISO)
calcitriol  (ISO)
capsaicin  (ISO)
carbamazepine  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
colforsin daropate hydrochloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
daidzein  (ISO)
daidzein 7-O-beta-D-glucoside  (ISO)
dichloroacetic acid  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
flavonoids  (EXP)
fluoranthene  (ISO)
flutamide  (EXP)
formaldehyde  (ISO)
genistein  (ISO)
genistein 7-O-beta-D-glucoside  (ISO)
glycitein  (ISO)
glycitin  (ISO)
GW 4064  (ISO)
GW 7647  (ISO)
indole-3-methanol  (EXP)
iron atom  (EXP)
iron(0)  (EXP)
isoflavones  (EXP,ISO)
isotretinoin  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (ISO)
methyl methanesulfonate  (ISO)
methylseleninic acid  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
monosodium L-glutamate  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
oleic acid  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
quinolin-8-ol  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
senecionine  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP,ISO)
Soman  (EXP)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP,ISO)
topotecan  (ISO)
Trapidil  (EXP)
triadimefon  (EXP)
tributylstannane  (ISO)
trichostatin A  (ISO)
troglitazone  (EXP,ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zoledronic acid  (ISO)

References

References - curated
1. Benani A, etal., Eur J Neurosci. 2003 Oct;18(7):1904-14.
2. Cheng Y, etal., Inflammation. 2011 Dec;34(6):698-706. doi: 10.1007/s10753-010-9281-5.
3. Fujino T, etal., J Biol Chem 1996 Jul 12;271(28):16748-52.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Jeong HM, etal., Oncotarget. 2017 Jun 27;8(37):61538-61550. doi: 10.18632/oncotarget.18618. eCollection 2017 Sep 22.
6. Johnson CO, etal., Circ Cardiovasc Genet. 2012 Aug 1;5(4):422-9. doi: 10.1161/CIRCGENETICS.111.961912. Epub 2012 Jun 1.
7. Klett EL, etal., J Lipid Res. 2017 May;58(5):884-894. doi: 10.1194/jlr.M072512. Epub 2017 Feb 16.
8. Legg RL, etal., Reprod Biol Endocrinol. 2008 Nov 24;6:57.
9. Mashek DG, etal., J Lipid Res. 2006 Sep;47(9):2004-10. Epub 2006 Jun 13.
10. MGD Curation, June 12, 2002
11. MGD data from the GO Consortium
12. NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. Obinata D, etal., Oncogene. 2016 Dec 8;35(49):6350-6358. doi: 10.1038/onc.2016.171. Epub 2016 Jun 6.
14. Papadia F, etal., Chir Ital 1976 Dec;28(6):817-30.
15. Pei Z, etal., PLoS One. 2013 Jul 23;8(7):e69392. doi: 10.1371/journal.pone.0069392. Print 2013.
16. Perera F, etal., PLoS One. 2009;4(2):e4488. doi: 10.1371/journal.pone.0004488. Epub 2009 Feb 16.
17. Pipeline to import KEGG annotations from KEGG into RGD
18. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. RGD automated import pipeline for gene-chemical interactions
20. RGD comprehensive gene curation
21. Shang Y, etal., Am J Respir Cell Mol Biol. 2013 Aug;49(2):279-87. doi: 10.1165/rcmb.2012-0403OC.
22. Wang J, etal., Cancer Prev Res (Phila). 2013 Apr;6(4):321-30. doi: 10.1158/1940-6207.CAPR-12-0304. Epub 2013 Mar 19.
23. Watkins PA, etal., J Lipid Res. 2007 Dec;48(12):2736-50. Epub 2007 Aug 30.
Additional References at PubMed
PMID:9276691   PMID:14741744   PMID:18003621   PMID:19737935   PMID:19946888   PMID:20219900   PMID:20605918   PMID:21498505   PMID:22633490  


Genomics

Comparative Map Data
Acsl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2980,140,996 - 80,164,636 (+)NCBI
Rnor_6.0 Ensembl984,569,597 - 84,593,565 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0984,569,601 - 84,593,565 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0984,301,912 - 84,351,516 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4978,083,239 - 78,106,933 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1978,266,656 - 78,290,352 (+)NCBI
Celera977,647,726 - 77,671,370 (+)NCBICelera
Cytogenetic Map9q34NCBI
ACSL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2222,860,942 - 222,944,639 (+)EnsemblGRCh38hg38GRCh38
GRCh382222,861,036 - 222,944,639 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372223,725,754 - 223,809,357 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362223,433,976 - 223,516,363 (+)NCBINCBI36hg18NCBI36
Celera2217,493,969 - 217,573,566 (+)NCBI
Cytogenetic Map2q36.1NCBI
HuRef2215,580,012 - 215,659,429 (+)NCBIHuRef
CHM1_12223,732,626 - 223,813,632 (+)NCBICHM1_1
Acsl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39178,635,542 - 78,685,460 (+)NCBIGRCm39mm39
GRCm39 Ensembl178,635,542 - 78,685,460 (+)Ensembl
GRCm38178,657,825 - 78,707,743 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl178,657,825 - 78,707,743 (+)EnsemblGRCm38mm10GRCm38
MGSCv37178,654,400 - 78,704,318 (+)NCBIGRCm37mm9NCBIm37
MGSCv36178,536,898 - 78,586,011 (+)NCBImm8
Celera179,126,781 - 79,177,063 (+)NCBICelera
Cytogenetic Map1C4NCBI
cM Map140.84NCBI
Acsl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545310,913,786 - 10,947,963 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545310,916,423 - 10,963,986 (-)NCBIChiLan1.0ChiLan1.0
ACSL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B228,706,141 - 228,759,882 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B228,706,142 - 228,759,882 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B110,100,210 - 110,181,277 (+)NCBIMhudiblu_PPA_v0panPan3
ACSL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3728,864,147 - 28,938,866 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13728,882,264 - 28,929,451 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Acsl3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365694,774,602 - 4,842,906 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ACSL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15124,568,383 - 124,817,004 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115124,741,986 - 124,816,955 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215138,663,708 - 138,712,406 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ACSL3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110108,787,341 - 108,867,523 (+)NCBI
ChlSab1.1 Ensembl10108,787,061 - 108,869,042 (+)Ensembl
Acsl3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248232,323,939 - 2,387,213 (-)NCBI

Position Markers
SHGC-36164  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0984,593,376 - 84,593,482NCBIRnor6.0
Rnor_5.0984,351,324 - 84,351,430UniSTSRnor5.0
RGSC_v3.4978,106,744 - 78,106,850UniSTSRGSC3.4
Celera977,671,181 - 77,671,287UniSTS
Cytogenetic Map9q33UniSTS
RH138650  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0984,593,457 - 84,593,577NCBIRnor6.0
Rnor_5.0984,351,405 - 84,351,525UniSTSRnor5.0
RGSC_v3.4978,106,825 - 78,106,945UniSTSRGSC3.4
Celera977,671,262 - 77,671,382UniSTS
RH 3.4 Map9727.2UniSTS
Cytogenetic Map9q33UniSTS
RH80004  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0984,593,344 - 84,593,530NCBIRnor6.0
Rnor_5.0984,351,292 - 84,351,478UniSTSRnor5.0
RGSC_v3.4978,106,712 - 78,106,898UniSTSRGSC3.4
Celera977,671,149 - 77,671,335UniSTS
Cytogenetic Map9q33UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9105522293442944Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92569234292741406Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92748615588333183Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)929075079122095297Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)929466970107878528Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)94126103490024806Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94126103498606834Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)941261034102531865Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94657976991579769Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94657976991579769Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94724896594124663Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95417754299177542Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)961186278106186278Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)963270073107878387Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)966757444112943287Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96745166499920892Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96745166499920892Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)970241351115241351Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)970942881115942881Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)981411073119983851Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)98368615398164303Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)98368615398164303Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)98368615398164303Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)983686153111609081Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:80
Count of miRNA genes:56
Interacting mature miRNAs:78
Transcripts:ENSRNOT00000020161
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 29 55 39 17 39 8 10 74 35 41 11 8
Low 14 2 2 2 2 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020161   ⟹   ENSRNOP00000020161
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl984,569,597 - 84,593,565 (+)Ensembl
RefSeq Acc Id: NM_057107   ⟹   NP_476448
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2980,140,996 - 80,164,636 (+)NCBI
Rnor_6.0984,569,601 - 84,593,565 (+)NCBI
Rnor_5.0984,301,912 - 84,351,516 (+)NCBI
RGSC_v3.4978,083,239 - 78,106,933 (+)RGD
Celera977,647,726 - 77,671,370 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_476448 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA06340 (Get FASTA)   NCBI Sequence Viewer  
  EDL75474 (Get FASTA)   NCBI Sequence Viewer  
  EDL75475 (Get FASTA)   NCBI Sequence Viewer  
  EDL75476 (Get FASTA)   NCBI Sequence Viewer  
  Q63151 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_476448   ⟸   NM_057107
- UniProtKB: Q63151 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020161   ⟸   ENSRNOT00000020161

Transcriptome

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


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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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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: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 78091943 78091944 G A snv HCR/1Mco (UMich)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70552 AgrOrtholog
Ensembl Genes ENSRNOG00000014718 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000020161 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000020161 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.12780 UniProtKB/Swiss-Prot
InterPro AMP-binding_CS UniProtKB/Swiss-Prot
  AMP-dep_Synth/Lig UniProtKB/Swiss-Prot
  AMP-dep_Synthh-like_sf UniProtKB/Swiss-Prot
KEGG Report rno:114024 UniProtKB/Swiss-Prot
NCBI Gene 114024 ENTREZGENE
Pfam AMP-binding UniProtKB/Swiss-Prot
PhenoGen Acsl3 PhenoGen
PROSITE AMP_BINDING UniProtKB/Swiss-Prot
UniProt ACSL3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Acsl3  acyl-CoA synthetase long-chain family member 3  Facl3  fatty acid Coenzyme A ligase, long chain 3  Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function catalyzes the first reaction in the acyl-CoA metabolism 70280
gene_function catalyzes the first reaction in the acyl-CoA metabolism 70808
gene_process plays a key role in lipid synthesis and in fatty acid degradation 70280
gene_process plays a key role in lipid synthesis and in fatty acid degradation 70808
gene_product member of the firefly luciferase family 70280
gene_product member of the firefly luciferase family 70808
gene_protein predicted 720 amino acids, 80 kDa 70280
gene_protein predicted 720 amino acids, 80 kDa 70808