Abat (4-aminobutyrate aminotransferase) - Rat Genome Database

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Gene: Abat (4-aminobutyrate aminotransferase) Rattus norvegicus
Analyze
Symbol: Abat
Name: 4-aminobutyrate aminotransferase
RGD ID: 620948
Description: Enables 4-aminobutyrate transaminase activity. Involved in several processes, including gamma-aminobutyric acid biosynthetic process; positive regulation of inhibitory postsynaptic potential; and regulation of secretion. Located in mitochondrial matrix. Used to study several diseases, including Huntington's disease; depressive disorder; epilepsy (multiple); heroin dependence; and ischemia. Biomarker of Parkinsonism. Human ortholog(s) of this gene implicated in Alzheimer's disease; GABA aminotransferase deficiency; and Huntington's disease. Orthologous to human ABAT (4-aminobutyrate aminotransferase); PARTICIPATES IN 2-hydroxyglutaric aciduria pathway; 3-hydroxy-3-methylglutaryl-CoA lyase deficiency pathway; 3-hydroxyisobutyric aciduria pathway; INTERACTS WITH (+)-schisandrin B; (aminooxy)acetic acid; 1,3-dinitrobenzene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: (S)-3-amino-2-methylpropionate transaminase; 4-aminobutyrate aminotransferase, mitochondrial; beta-AlaAT; beta-AlaAT I; GABA aminotransferase; GABA transaminase; GABA-AT; GABA-T; Gabat; gamma-amino-N-butyrate transaminase; L-AIBAT; MGC93392
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: AbatTn(sb-T2/Bart3)2.163Mcwi  
Genetic Models: F344-AbatTn(sb-T2/Bart3)2.163Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8107,503,351 - 7,599,474 (-)NCBIGRCr8
mRatBN7.2106,996,688 - 7,092,835 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl106,999,819 - 7,092,835 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1011,705,905 - 11,800,150 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01011,202,332 - 11,296,694 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0106,853,860 - 6,945,716 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0107,093,406 - 7,200,439 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl107,093,405 - 7,200,499 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0105,894,187 - 6,002,068 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4107,040,725 - 7,137,154 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1107,040,724 - 7,137,154 (-)NCBI
Celera105,995,207 - 6,088,218 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
(aminooxy)acetic acid  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1-bromopropane  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
amitriptyline  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
butanal  (ISO)
Butylparaben  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
caffeine  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
carnosic acid  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
cocaine  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
cypermethrin  (ISO)
decabromodiphenyl ether  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (ISO)
disulfiram  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
enzacamene  (EXP)
ethanol  (EXP,ISO)
finasteride  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gamma-aminobutyric acid  (EXP,ISO)
genistein  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
glyphosate  (ISO)
indometacin  (EXP)
ivermectin  (ISO)
ketoconazole  (EXP)
L-methionine  (ISO)
leflunomide  (ISO)
lithium chloride  (ISO)
maneb  (ISO)
methapyrilene  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
O-methyleugenol  (ISO)
ochratoxin A  (EXP)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentanal  (ISO)
pentetrazol  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (EXP)
phenylmercury acetate  (ISO)
phlorizin  (ISO)
pioglitazone  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propanal  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
sunitinib  (ISO)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
troglitazone  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vigabatrin  (EXP,ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. CPP-115, a vigabatrin analogue, decreases spasms in the multiple-hit rat model of infantile spasms. Briggs SW, etal., Epilepsia. 2014 Jan;55(1):94-102. doi: 10.1111/epi.12424. Epub 2013 Oct 28.
2. Vigabatrin, a GABA transaminase inhibitor, reversibly eliminates tinnitus in an animal model. Brozoski TJ, etal., J Assoc Res Otolaryngol. 2007 Mar;8(1):105-18. Epub 2007 Jan 13.
3. Reduced GABA transaminase activity in the Huntington's disease putamen. Carter CJ Neurosci Lett. 1984 Aug 10;48(3):339-42.
4. Anorectic potency of inhibiting GABA transaminase in brain: studies of hypothalamic, dietary and genetic obesities. Coscina DV and Nobrega JN, Int J Obes. 1984;8 Suppl 1:191-200.
5. A pharmacologic strategy for the treatment of nicotine addiction. Dewey SL, etal., Synapse. 1999 Jan;31(1):76-86.
6. Mechanism of GABA involvement in post-traumatic trigeminal neuropathic pain: Activation of neuronal circuitry composed of PKCgamma interneurons and pERK1/2 expressing neurons. Dieb W and Hafidi A, Eur J Pain. 2014 May 28. doi: 10.1002/ejp.525.
7. Effect of GABA-T inhibitors on prolactin secretion in vitro. Duvilanski BH, etal., Eur J Pharmacol. 1985 Sep 10;115(1):65-9.
8. Behavioral effects of vigabatrin correlated with whole brain gamma-aminobutyric acid metabolism in audiogenic sensitive rats. Engelborghs S, etal., Arzneimittelforschung. 1998 Jul;48(7):713-6.
9. Gamma-vinyl GABA, an irreversible inhibitor of GABA transaminase, alters the acquisition and expression of cocaine-induced sensitization in male rats. Gardner EL, etal., Synapse. 2002 Dec 15;46(4):240-50.
10. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GABAergic blockade of cocaine-associated cue-induced increases in nucleus accumbens dopamine. Gerasimov MR, etal., Eur J Pharmacol. 2001 Mar 2;414(2-3):205-9.
12. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
13. Hypercholesterolemia in rats with hepatomas: increased oxysterols accelerate efflux but do not inhibit biosynthesis of cholesterol. Hirayama T, etal., Hepatology. 2006 Sep;44(3):602-11.
14. Alteration of the GABAergic neuronal system of the retina and superior colliculus in streptozotocin-induced diabetic rat. Honda M, etal., Kobe J Med Sci. 1998 Feb;44(1):1-8.
15. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
16. Changes of GABA metabolic enzymes in acute retinal ischemia. Kobayashi N, etal., Exp Eye Res. 1999 Jul;69(1):91-6.
17. The mature size of rat 4-aminobutyrate aminotransferase is different in liver and brain. Kontani Y, etal., Eur J Biochem 1999 Aug;264(1):218-22.
18. Inhibition of gamma-aminobutyric acid aminotransferase from rat brain mitochondria by chloride and acetate. Kraus P and Noack G, J Enzyme Inhib. 1996;10(2):125-33.
19. Electrical stimulation-evoked release of endogenous aspartate from rat medulla oblongata slices. Effects of inhibitors of aspartate aminotransferase and GABA transaminase. Kubo T, etal., Naunyn Schmiedebergs Arch Pharmacol. 1990 Mar;341(3):221-4.
20. Effects of iron deficiency on iron distribution and gamma-aminobutyric acid (GABA) metabolism in young rat brain tissues. Li D Hokkaido Igaku Zasshi. 1998 May;73(3):215-25.
21. In vivo administration of valproate reduces the nerve terminal (synaptosomal) activity of GABA aminotransferase in discrete brain areas of rats. Loscher W Neurosci Lett. 1993 Oct 1;160(2):177-80.
22. Glutamate dependence of GABA levels in neurons of hypoxic and hypoglycemic rat hippocampal slices. Madl JE and Royer SM, Neuroscience. 2000;96(4):657-64.
23. Histochemical study of glutamic dehydrogenase (GLD) and GABA-transaminase (GABA-T) activities in the rat cerebellum during postnatal development. Martinez-Rodriguez R, etal., Cell Mol Biol. 1982;28(6):513-20.
24. Chronic administration of the antidepressant phenelzine and its N-acetyl analogue: effects on GABAergic function. McKenna KF, etal., J Neural Transm Suppl. 1994;41:115-22.
25. Vigabatrin versus carbamazepine and phenytoin in kainic acid-treated pubescent rats. Mecarelli O, etal., Pharmacol Res. 1997 Aug;36(2):87-93.
26. A rat brain cDNA encodes enzymatically active GABA transaminase and provides a molecular probe for GABA-catabolizing cells. Medina-Kauwe LK, etal., J Neurochem 1994 Apr;62(4):1267-75.
27. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
28. Identification of a median thalamic system regulating seizures and arousal. Miller JW, etal., Epilepsia. 1989 Jul-Aug;30(4):493-500.
29. Anticonvulsant activity of Benkara malabarica (Linn.) root extract: In vitro and in vivo investigation. Mishra N, etal., J Ethnopharmacol. 2010 Mar 24;128(2):533-6. doi: 10.1016/j.jep.2010.01.042. Epub 2010 Jan 28.
30. Glutamate decarboxylase and GABA aminotransferase levels in different regions of rat brain on the onset of Leptazol induced convulsions. Nasreen Z, etal., Neurochem Res. 2012 Jan;37(1):202-4. doi: 10.1007/s11064-011-0603-2. Epub 2011 Sep 21.
31. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
32. Effects of GABA-transaminase inhibitor Vigabatrin on thermoregulation in rats. Nikolov RP and Yakimova KS, Amino Acids. 2011 May;40(5):1441-5. doi: 10.1007/s00726-010-0754-5. Epub 2010 Sep 28.
33. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
34. Paradoxical reduction of synaptic inhibition by vigabatrin. Overstreet LS and Westbrook GL, J Neurophysiol. 2001 Aug;86(2):596-603.
35. (1S, 3S)-3-amino-4-difluoromethylenyl-1-cyclopentanoic acid (CPP-115), a potent gamma-aminobutyric acid aminotransferase inactivator for the treatment of cocaine addiction. Pan Y, etal., J Med Chem. 2012 Jan 12;55(1):357-66. doi: 10.1021/jm201231w. Epub 2011 Dec 30.
36. Electromyographic activity of rat ischiocavernosus muscles during copulation after treatment with a GABA-transaminase inhibitor. Paredes RG, etal., Behav Neural Biol. 1993 Sep;60(2):118-22.
37. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
38. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
39. Glucose promotion of GABA metabolism contributes to the stimulation of insulin secretion in beta-cells. Pizarro-Delgado J, etal., Biochem J. 2010 Nov 1;431(3):381-9. doi: 10.1042/BJ20100714.
40. The effect of chronic treatment with the GABA transaminase inhibitors gamma-vinyl-GABA and ethanolamine-O-sulphate on the in vivo release of GABA from rat hippocampus. Qume M, etal., J Neurochem. 1995 May;64(5):2256-61.
41. Effect of vigabatrin on contractile response to arachidonic acid and prostaglandins in smooth muscle preparations and platelet aggregation in experimental laboratory animals. Raza M and Al-Shabanah OA, Pharmacol Res. 2003 Jun;47(6):477-83.
42. GOA pipeline RGD automated data pipeline
43. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
44. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
45. An analysis of the cortical and striatal involvement in dyskinesia induced in rats by intracerebral injection of GABA-transaminase inhibitors and picrotoxin. Robin MM, etal., Eur J Pharmacol. 1980 Apr 4;62(4):319-27.
46. Inhibitors of GABA metabolism: implications for Huntington's disease. Schwarcz R, etal., Ann Neurol. 1977 Oct;2(4):299-303.
47. Suppression of haloperidol-induced oral dyskinesias in rats by vigabatrin. Seiler N, etal., Pharmacol Biochem Behav. 1995 Feb;50(2):181-9.
48. Effects of chronic treatment with the GABA-transaminase inhibitor vigabatrin on exploratory behaviour in rats. Sherif F and Oreland L, Behav Brain Res. 1994 Jul 29;63(1):11-5.
49. Effect of the GABA-transaminase inhibitor vigabatrin on exploratory behaviour in socially isolated rats. Sherif F and Oreland L, Behav Brain Res. 1995 Dec 14;72(1-2):135-40.
50. GABA-transaminase activity in rat and human brain: regional, age and sex-related differences. Sherif F, etal., J Neural Transm Gen Sect. 1991;84(1-2):95-102.
51. Increase in brain GABA-transaminase activity after chronic ethanol treatment in rats. Sherif F, etal., J Neural Transm Gen Sect. 1994;98(1):69-79.
52. Brain gamma-aminobutyrate aminotransferase (GABA-T) and monoamine oxidase (MAO) in patients with Alzheimer's disease. Sherif F, etal., J Neural Transm Park Dis Dement Sect. 1992;4(3):227-40.
53. Effects of gamma-vinyl GABA (vigabatrin) on blood pressure and body weight of hypertensive and normotensive rats. Singewald N, etal., Naunyn Schmiedebergs Arch Pharmacol. 1992 Feb;345(2):181-6.
54. Enhanced GABAergic tone in the ventral pallidum: memory of unpleasant experiences? Skirzewski M, etal., Neuroscience. 2011 Nov 24;196:131-46. doi: 10.1016/j.neuroscience.2011.08.058. Epub 2011 Aug 30.
55. Increased dopamine release from rat striatal slices by inhibitors of GABA-aminotransferase. Stoof JC and Mulder AH, Eur J Pharmacol. 1977 Nov 15;46(2):177-80.
56. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
57. Submitochondrial localization of rat liver beta-alanine-oxoglutarate aminotransferase. Tamaki N, etal., J Nutr Sci Vitaminol (Tokyo). 1987 Dec;33(6):439-49.
58. Purification, properties, and sequencing of aminoisobutyrate aminotransferases from rat liver. Tamaki N, etal., Methods Enzymol 2000;324:376-89.
59. Contrasting effects of the GABA transaminase inhibitors gamma-vinylGABA and aminooxyacetic acid on arterial pressure following injection into nucleus tractus solitarius. Tsukamoto K and Sved AF, Neuropharmacology. 1993 Jun;32(6):575-9.
60. Treatment of epilepsy: the GABA-transaminase inhibitor, vigabatrin, induces neuronal plasticity in the mouse retina. Wang QP, etal., Eur J Neurosci. 2008 Apr;27(8):2177-87. doi: 10.1111/j.1460-9568.2008.06175.x.
61. Increased mesolimbic GABA concentration blocks heroin self-administration in the rat. Xi ZX and Stein EA, J Pharmacol Exp Ther. 2000 Aug;294(2):613-9.
62. Detection of reduced GABA synthesis following inhibition of GABA transaminase using in vivo magnetic resonance signal of GABA C1. Yang J, etal., J Neurosci Methods. 2009 Sep 15;182(2):236-43. doi: 10.1016/j.jneumeth.2009.06.015. Epub 2009 Jun 21.
63. Assessment of the treatment effect of baicalein on a model of Parkinsonian tremor and elucidation of the mechanism. Yu X, etal., Life Sci. 2012 Jul 26;91(1-2):5-13. doi: 10.1016/j.lfs.2012.05.005. Epub 2012 May 23.
Additional References at PubMed
PMID:648527   PMID:6470007   PMID:10850552   PMID:11561735   PMID:14651853   PMID:15489334   PMID:15528998   PMID:15650327   PMID:18614015   PMID:23376485   PMID:24809054   PMID:31534049  
PMID:32357304  


Genomics

Comparative Map Data
Abat
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8107,503,351 - 7,599,474 (-)NCBIGRCr8
mRatBN7.2106,996,688 - 7,092,835 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl106,999,819 - 7,092,835 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1011,705,905 - 11,800,150 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01011,202,332 - 11,296,694 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0106,853,860 - 6,945,716 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0107,093,406 - 7,200,439 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl107,093,405 - 7,200,499 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0105,894,187 - 6,002,068 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4107,040,725 - 7,137,154 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1107,040,724 - 7,137,154 (-)NCBI
Celera105,995,207 - 6,088,218 (-)NCBICelera
Cytogenetic Map10q12NCBI
ABAT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38168,674,617 - 8,784,570 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl168,674,596 - 8,784,575 (+)EnsemblGRCh38hg38GRCh38
GRCh37168,768,474 - 8,878,427 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36168,675,928 - 8,785,933 (+)NCBINCBI36Build 36hg18NCBI36
Build 34168,675,945 - 8,785,932NCBI
Celera168,937,805 - 9,047,806 (+)NCBICelera
Cytogenetic Map16p13.2NCBI
HuRef168,691,116 - 8,800,895 (+)NCBIHuRef
CHM1_1168,768,357 - 8,878,342 (+)NCBICHM1_1
T2T-CHM13v2.0168,707,289 - 8,817,330 (+)NCBIT2T-CHM13v2.0
Abat
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39168,331,293 - 8,439,432 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl168,331,293 - 8,439,432 (+)EnsemblGRCm39 Ensembl
GRCm38168,513,429 - 8,621,568 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl168,513,429 - 8,621,568 (+)EnsemblGRCm38mm10GRCm38
MGSCv37168,513,522 - 8,621,661 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36168,428,810 - 8,536,889 (+)NCBIMGSCv36mm8
Celera169,158,444 - 9,266,822 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map164.06NCBI
Abat
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554429,422,849 - 9,516,103 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554429,422,849 - 9,516,054 (-)NCBIChiLan1.0ChiLan1.0
ABAT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2189,201,692 - 9,323,956 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11612,999,815 - 13,108,612 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0167,609,282 - 7,718,049 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1168,850,010 - 8,958,420 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl168,888,178 - 8,958,420 (+)Ensemblpanpan1.1panPan2
ABAT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1633,385,779 - 33,471,348 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl633,376,996 - 33,471,326 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha634,776,452 - 34,862,027 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0633,584,479 - 33,670,069 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl633,584,487 - 33,670,052 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1633,386,823 - 33,472,421 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0633,256,654 - 33,342,147 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0633,678,493 - 33,764,059 (-)NCBIUU_Cfam_GSD_1.0
Abat
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344109,698,256 - 109,775,982 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365307,543,682 - 7,622,667 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365307,543,743 - 7,621,392 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABAT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl333,908,970 - 34,015,474 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1333,913,068 - 33,960,804 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2334,642,449 - 34,682,257 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ABAT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.158,274,310 - 8,380,973 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl58,315,952 - 8,379,549 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606821,840,065 - 21,946,865 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abat
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248246,141,213 - 6,202,936 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248246,112,644 - 6,202,936 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

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Variants in Abat
720 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:21
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000003633
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat

Markers in Region
STS-Z39377  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2107,091,152 - 7,091,407 (+)MAPPERmRatBN7.2
Rnor_6.0107,198,754 - 7,199,008NCBIRnor6.0
Rnor_5.0106,000,383 - 6,000,637UniSTSRnor5.0
RGSC_v3.4107,135,469 - 7,135,723UniSTSRGSC3.4
Celera106,086,536 - 6,086,790UniSTS
Cytogenetic Map10q12UniSTS


Genetic Models
This gene Abat is modified in the following models/strains:


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 37 37 37 74 35 25
Low 2 20 20 4 11 4 7 7 16 9 7
Below cutoff 1 20 8 1 4 2 1

Sequence


RefSeq Acc Id: ENSRNOT00000003633   ⟹   ENSRNOP00000003633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl106,999,819 - 7,092,835 (-)Ensembl
Rnor_6.0 Ensembl107,093,405 - 7,200,499 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096222   ⟹   ENSRNOP00000083566
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl107,016,140 - 7,092,835 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118904   ⟹   ENSRNOP00000082381
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl106,999,819 - 7,092,835 (-)Ensembl
RefSeq Acc Id: NM_031003   ⟹   NP_112265
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8107,506,480 - 7,599,474 (-)NCBI
mRatBN7.2106,999,819 - 7,092,835 (-)NCBI
Rnor_6.0107,094,258 - 7,200,439 (-)NCBI
Rnor_5.0105,894,187 - 6,002,068 (-)NCBI
RGSC_v3.4107,040,725 - 7,137,154 (-)RGD
Celera105,995,207 - 6,088,218 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245760   ⟹   XP_006245822
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8107,503,351 - 7,559,787 (-)NCBI
mRatBN7.2106,996,688 - 7,053,104 (-)NCBI
Rnor_6.0107,093,406 - 7,146,498 (-)NCBI
Rnor_5.0105,894,187 - 6,002,068 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063269943   ⟹   XP_063126013
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8107,503,351 - 7,550,292 (-)NCBI
RefSeq Acc Id: NP_112265   ⟸   NM_031003
- UniProtKB: A0A8I6G7C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245822   ⟸   XM_006245760
- Peptide Label: isoform X1
- UniProtKB: O70539 (UniProtKB/Swiss-Prot),   Q66HM1 (UniProtKB/Swiss-Prot),   P50554 (UniProtKB/Swiss-Prot),   A6K4M1 (UniProtKB/TrEMBL),   A0A8I6G7C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000003633   ⟸   ENSRNOT00000003633
RefSeq Acc Id: ENSRNOP00000083566   ⟸   ENSRNOT00000096222
RefSeq Acc Id: ENSRNOP00000082381   ⟸   ENSRNOT00000118904
RefSeq Acc Id: XP_063126013   ⟸   XM_063269943
- Peptide Label: isoform X1
- UniProtKB: Q66HM1 (UniProtKB/Swiss-Prot),   P50554 (UniProtKB/Swiss-Prot),   O70539 (UniProtKB/Swiss-Prot),   A6K4M1 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P50554-F1-model_v2 AlphaFold P50554 1-500 view protein structure

Transcriptome

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

Promoters
RGD ID:13696954
Promoter ID:EPDNEW_R7479
Type:multiple initiation site
Name:Abat_1
Description:4-aminobutyrate aminotransferase
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_6.0107,200,476 - 7,200,536EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620948 AgrOrtholog
BioCyc Gene G2FUF-26094 BioCyc
BioCyc Pathway BETA-ALA-DEGRADATION-I-PWY [beta-alanine degradation I] BioCyc
  GLUDEG-I-PWY [GABA shunt] BioCyc
  PWY-6535 [4-aminobutanoate degradation I] BioCyc
  VALDEG-PWY [L-valine degradation I] BioCyc
BioCyc Pathway Image BETA-ALA-DEGRADATION-I-PWY BioCyc
  GLUDEG-I-PWY BioCyc
  PWY-6535 BioCyc
  VALDEG-PWY BioCyc
Ensembl Genes ENSRNOG00000002636 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055025368 UniProtKB/Swiss-Prot
  ENSRNOG00060010424 UniProtKB/Swiss-Prot
  ENSRNOG00065002947 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003633 ENTREZGENE
  ENSRNOT00000003633.5 UniProtKB/Swiss-Prot
  ENSRNOT00000096222.1 UniProtKB/TrEMBL
  ENSRNOT00000118904.1 UniProtKB/TrEMBL
  ENSRNOT00055043768 UniProtKB/Swiss-Prot
  ENSRNOT00060017651 UniProtKB/Swiss-Prot
  ENSRNOT00065004124 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.640.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.1150.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109775 IMAGE-MGC_LOAD
InterPro 4NH2But_aminotransferase_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Aminotrans_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Aminotrans_3_PPA_site UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_dom1 UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase_major UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PyrdxlP-dep_Trfase_small UniProtKB/TrEMBL
KEGG Report rno:81632 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93392 IMAGE-MGC_LOAD
NCBI Gene 81632 ENTREZGENE
PANTHER 4-AMINOBUTYRATE AMINOTRANSFERASE, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AMINOTRANSFERASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Aminotran_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB ABAT RGD
PhenoGen Abat PhenoGen
PIRSF Transaminase_4ab_Lys_Orn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE AA_TRANSFER_CLASS_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002636 RatGTEx
  ENSRNOG00055025368 RatGTEx
  ENSRNOG00060010424 RatGTEx
  ENSRNOG00065002947 RatGTEx
Superfamily-SCOP SSF53383 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZW33_RAT UniProtKB/TrEMBL
  A0A8I6G7C5 ENTREZGENE, UniProtKB/TrEMBL
  A6K4M1 ENTREZGENE, UniProtKB/TrEMBL
  A6K4M2_RAT UniProtKB/TrEMBL
  GABT_RAT UniProtKB/Swiss-Prot
  O70539 ENTREZGENE
  P50554 ENTREZGENE
  Q66HM1 ENTREZGENE
UniProt Secondary O70539 UniProtKB/Swiss-Prot
  Q66HM1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Abat  4-aminobutyrate aminotransferase      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Abat  4-aminobutyrate aminotransferase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in brain, cerebellar cortex ,liver, kidney, and testis 631979
gene_protein 466 amino acids 631980
gene_protein proteolytically cleaved in two steps in the mitochondria to produce brain- and liver-specific forms 631979
gene_protein proteolytically cleaved in two steps in the mitochondria to produce brain- and liver-specific forms 631980
gene_regulation active enzyme in brain is larger than in liver due to use of a second proteolytic cleavage site