Acsl4 (acyl-CoA synthetase long-chain family member 4) - Rat Genome Database

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Gene: Acsl4 (acyl-CoA synthetase long-chain family member 4) Rattus norvegicus
Analyze
Symbol: Acsl4
Name: acyl-CoA synthetase long-chain family member 4
RGD ID: 69401
Description: Exhibits arachidonate-CoA ligase activity. Involved in several processes, including dendritic spine development; long-chain fatty-acyl-CoA biosynthetic process; and positive regulation of insulin secretion. Localizes to mitochondrial membrane; neuronal cell body; and peroxisome. Colocalizes with endoplasmic reticulum. Human ortholog(s) of this gene implicated in intellectual disability and non-syndromic X-linked intellectual disability 63. Orthologous to human ACSL4 (acyl-CoA synthetase long chain family member 4); PARTICIPATES IN fatty acid beta degradation pathway; eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; fatty acid metabolic pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Acs4; arachidonate--CoA ligase; Facl4; fatty acid Coenzyme A ligase, long chain 4; fatty acid-Coenzyme A ligase long chain 4; fatty acid-Coenzyme A ligase, long chain 4; LACS 4; long-chain acyl-CoA synthetase 4; long-chain-fatty-acid--CoA ligase 4
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
mRatBN7.2X105,942,794 - 106,006,573 (-)NCBI
Rnor_6.0 EnsemblX113,596,239 - 113,659,944 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X113,596,247 - 113,660,024 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X112,046,187 - 112,109,974 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X36,168,547 - 36,232,162 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X36,222,015 - 36,285,631 (+)NCBI
CeleraX105,356,949 - 105,420,560 (-)NCBICelera
Cytogenetic MapXq33NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
beauvericin  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bezafibrate  (ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
cadmium dichloride  (ISO)
cadmium sulfate  (ISO)
caffeine  (ISO)
calciol  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
cobalt dichloride  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
CU-O LINKAGE  (ISO)
dexamethasone  (EXP,ISO)
dibutyl phthalate  (EXP,ISO)
dichloroacetic acid  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enniatin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
farnesol  (ISO)
fenofibrate  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
Gastrodin  (ISO)
glutathione  (EXP)
GW 4064  (ISO)
GW 7647  (ISO)
hexadecanoic acid  (ISO)
L-ascorbic acid  (EXP)
L-glutamic acid  (ISO)
L-methionine  (ISO)
lead(II) chloride  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
O-methyleugenol  (ISO)
obeticholic acid  (ISO)
oleic acid  (ISO)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
rac-lactic acid  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
succimer  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
tetradecane  (EXP)
thimerosal  (ISO)
titanium dioxide  (ISO)
topiramate  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
troglitazone  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. Almendro V, etal., Obesity (Silver Spring). 2008 Feb;16(2):285-9.
2. Benani A, etal., Eur J Neurosci. 2003 Oct;18(7):1904-14.
3. Cho YY, etal., Biochem Biophys Res Commun 2001 Jun 22;284(4):993-7.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Kang MJ, etal., Proc Natl Acad Sci U S A 1997 Apr 1;94(7):2880-4.
7. Kim JH, etal., J Biol Chem 2001 Jul 6;276(27):24667-73.
8. Klett EL, etal., J Biol Chem. 2013 Jul 26;288(30):21618-29. doi: 10.1074/jbc.M113.481077. Epub 2013 Jun 13.
9. Klett EL, etal., J Lipid Res. 2017 May;58(5):884-894. doi: 10.1194/jlr.M072512. Epub 2017 Feb 16.
10. Lewin TM, etal., Arch Biochem Biophys. 2002 Aug 15;404(2):263-70.
11. Lewin TM, etal., J Biol Chem 2001 Jul 6;276(27):24674-9.
12. Mashek DG, etal., J Lipid Res. 2006 Sep;47(9):2004-10. Epub 2006 Jun 13.
13. Meloni I, etal., Nat Genet 2002 Apr;30(4):436-40.
14. Meloni I, etal., Neuroscience. 2009 Mar 17;159(2):657-69. Epub 2008 Dec 24.
15. MGD data from the GO Consortium
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
18. OMIM Disease Annotation Pipeline
19. Pipeline to import KEGG annotations from KEGG into RGD
20. RGD automated data pipeline
21. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
22. RGD automated import pipeline for gene-chemical interactions
23. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
24. Tong F, etal., Arch Biochem Biophys. 2006 Mar 1;447(1):46-52. Epub 2006 Jan 23.
25. Watkins PA, etal., J Lipid Res. 2007 Dec;48(12):2736-50. Epub 2007 Aug 30.
Additional References at PubMed
PMID:9598324   PMID:10669417   PMID:12525535   PMID:14741744   PMID:17934335   PMID:18614015   PMID:19056867   PMID:19946888   PMID:20458337   PMID:21184843   PMID:21242590   PMID:21903867  
PMID:22366036   PMID:22633490   PMID:23159612   PMID:23376485   PMID:23455425   PMID:24095834   PMID:24269233   PMID:25500141   PMID:33246155  


Genomics

Comparative Map Data
Acsl4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X105,942,794 - 106,006,573 (-)NCBI
Rnor_6.0 EnsemblX113,596,239 - 113,659,944 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X113,596,247 - 113,660,024 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X112,046,187 - 112,109,974 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X36,168,547 - 36,232,162 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X36,222,015 - 36,285,631 (+)NCBI
CeleraX105,356,949 - 105,420,560 (-)NCBICelera
Cytogenetic MapXq33NCBI
ACSL4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX109,624,244 - 109,733,403 (-)EnsemblGRCh38hg38GRCh38
GRCh38X109,641,335 - 109,733,325 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X108,884,564 - 108,976,486 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X108,771,220 - 108,863,277 (-)NCBINCBI36hg18NCBI36
Build 34X108,690,710 - 108,782,764NCBI
CeleraX109,364,202 - 109,456,256 (-)NCBI
Cytogenetic MapXq23NCBI
HuRefX98,507,227 - 98,598,360 (-)NCBIHuRef
CHM1_1X108,795,825 - 108,887,899 (-)NCBICHM1_1
Acsl4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X141,100,989 - 141,173,792 (-)NCBIGRCm39mm39
GRCm39 EnsemblX141,100,989 - 141,173,531 (-)Ensembl
GRCm38X142,317,993 - 142,390,802 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX142,317,993 - 142,390,535 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X138,752,536 - 138,825,078 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X137,564,361 - 137,636,903 (-)NCBImm8
CeleraX126,313,470 - 126,386,150 (-)NCBICelera
Cytogenetic MapXF2NCBI
Acsl4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554906,143,833 - 6,228,452 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554906,143,833 - 6,228,395 (+)NCBIChiLan1.0ChiLan1.0
ACSL4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X109,219,030 - 109,311,055 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX109,206,964 - 109,310,914 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X98,731,109 - 98,841,067 (-)NCBIMhudiblu_PPA_v0panPan3
ACSL4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X82,864,506 - 82,943,984 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX82,866,823 - 82,916,789 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX68,942,879 - 69,022,158 (-)NCBI
ROS_Cfam_1.0X84,514,941 - 84,594,878 (-)NCBI
UMICH_Zoey_3.1X81,992,030 - 82,071,595 (-)NCBI
UNSW_CanFamBas_1.0X83,686,230 - 83,765,682 (-)NCBI
UU_Cfam_GSD_1.0X83,514,931 - 83,594,528 (-)NCBI
Acsl4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X82,117,850 - 82,200,866 (-)NCBI
SpeTri2.0NW_0049364995,456,985 - 5,540,115 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ACSL4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX89,760,865 - 89,837,678 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X89,760,863 - 89,838,103 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X105,375,895 - 105,452,684 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ACSL4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X97,488,414 - 97,575,251 (-)NCBI
Vero_WHO_p1.0NW_02366606522,691,629 - 22,774,770 (-)NCBI
Acsl4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248036,272,954 - 6,372,815 (+)NCBI

Position Markers
DXRat148  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X106,008,181 - 106,008,389 (+)MAPPER
Rnor_6.0X113,661,633 - 113,661,840NCBIRnor6.0
Rnor_5.0X112,111,578 - 112,111,785UniSTSRnor5.0
RGSC_v3.4X36,166,584 - 36,166,792RGDRGSC3.4
RGSC_v3.4X36,166,585 - 36,166,792UniSTSRGSC3.4
RGSC_v3.1X36,220,053 - 36,220,261RGD
CeleraX105,422,315 - 105,422,522UniSTS
FHH x ACI MapX32.4RGD
FHH x ACI MapX32.4UniSTS
Cytogenetic MapXq14UniSTS
BE096007  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X105,942,849 - 105,942,990 (+)MAPPER
Rnor_6.0X113,596,298 - 113,596,438NCBIRnor6.0
Rnor_5.0X112,046,243 - 112,046,383UniSTSRnor5.0
RGSC_v3.4X36,231,986 - 36,232,126UniSTSRGSC3.4
CeleraX105,356,985 - 105,357,125UniSTS
Cytogenetic MapXq14UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X44320616158345622Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX44557974120045269Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X70352120127888215Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X82930791127930791Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X101333032146333032Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX107886746152409805Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X110957467155957467Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X110957467155957467Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:669
Count of miRNA genes:289
Interacting mature miRNAs:388
Transcripts:ENSRNOT00000026057
Prediction methods:Miranda, Pita, 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 2 22 57 41 19 41 8 8 74 35 36 11 8
Low 1 21 3 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026057   ⟹   ENSRNOP00000026057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX113,596,239 - 113,659,944 (-)Ensembl
RefSeq Acc Id: NM_053623   ⟹   NP_446075
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X105,942,814 - 106,006,427 (-)NCBI
Rnor_6.0X113,596,262 - 113,659,878 (-)NCBI
Rnor_5.0X112,046,187 - 112,109,974 (-)NCBI
RGSC_v3.4X36,168,547 - 36,232,162 (+)RGD
CeleraX105,356,949 - 105,420,560 (-)RGD
Sequence:
RefSeq Acc Id: XM_006257314   ⟹   XP_006257376
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X105,942,794 - 106,006,491 (-)NCBI
Rnor_6.0X113,596,247 - 113,659,877 (-)NCBI
Rnor_5.0X112,046,187 - 112,109,974 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006257315   ⟹   XP_006257377
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X105,942,794 - 106,006,490 (-)NCBI
Rnor_6.0X113,596,247 - 113,659,876 (-)NCBI
Rnor_5.0X112,046,187 - 112,109,974 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006257316   ⟹   XP_006257378
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X105,942,794 - 106,006,573 (-)NCBI
Rnor_6.0X113,596,247 - 113,660,024 (-)NCBI
Rnor_5.0X112,046,187 - 112,109,974 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099394   ⟹   XP_038955322
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X105,942,794 - 106,006,491 (-)NCBI
RefSeq Acc Id: XM_039099395   ⟹   XP_038955323
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X105,958,488 - 106,006,495 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_446075   ⟸   NM_053623
- UniProtKB: O35547 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006257378   ⟸   XM_006257316
- Peptide Label: isoform X2
- UniProtKB: O35547 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006257376   ⟸   XM_006257314
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006257377   ⟸   XM_006257315
- Peptide Label: isoform X2
- UniProtKB: O35547 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026057   ⟸   ENSRNOT00000026057
RefSeq Acc Id: XP_038955322   ⟸   XM_039099394
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955323   ⟸   XM_039099395
- Peptide Label: isoform X3

Transcriptome

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

Promoters
RGD ID:13701963
Promoter ID:EPDNEW_R12487
Type:initiation region
Name:Acsl4_1
Description:acyl-CoA synthetase long-chain family member 4
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_6.0X113,659,866 - 113,659,926EPDNEW

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69401 AgrOrtholog
Ensembl Genes ENSRNOG00000019180 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000026057 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000026057 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:113976 UniProtKB/Swiss-Prot
NCBI Gene 113976 ENTREZGENE
Pfam AMP-binding UniProtKB/Swiss-Prot
PhenoGen Acsl4 PhenoGen
PROSITE AMP_BINDING UniProtKB/Swiss-Prot
TIGR TC205409
UniProt ACSL4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Acsl4  acyl-CoA synthetase long-chain family member 4  Facl4  fatty acid Coenzyme A ligase, long chain 4  Symbol and Name updated 1299863 APPROVED
2002-06-10 Facl4  fatty acid Coenzyme A ligase, long chain 4      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference