Slc6a1 (solute carrier family 6 member 1) - Rat Genome Database

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Gene: Slc6a1 (solute carrier family 6 member 1) Rattus norvegicus
Analyze
Symbol: Slc6a1
Name: solute carrier family 6 member 1
RGD ID: 620533
Description: Enables gamma-aminobutyric acid:sodium:chloride symporter activity and identical protein binding activity. Involved in several processes, including gamma-aminobutyric acid import; negative regulation of GABAergic synaptic transmission; and positive regulation of gamma-aminobutyric acid secretion. Located in cell surface; neuron projection; and plasma membrane. Is active in GABA-ergic synapse; postsynaptic membrane; and presynaptic membrane. Used to study brain ischemia. Biomarker of cerebral infarction; epilepsy; temporal lobe epilepsy; and withdrawal disorder. Orthologous to human SLC6A1 (solute carrier family 6 member 1); INTERACTS WITH (+)-pilocarpine; 17alpha-ethynylestradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: GABA transporter protein; Gabt1; GAT-1; Gat1; sodium- and chloride-dependent GABA transporter 1; solute carrier family 6 (neurotransmitter transporter), member 1; solute carrier family 6 (neurotransmitter transporter, GABA), member 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24147,448,961 - 147,482,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4147,466,965 - 147,482,293 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4152,852,597 - 152,867,957 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.04148,633,475 - 148,648,835 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.04147,262,896 - 147,278,256 (+)NCBIRnor_WKY
Rnor_6.04146,258,842 - 146,292,176 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4146,276,862 - 146,292,213 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04209,552,452 - 209,585,794 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44150,249,867 - 150,265,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14150,494,707 - 150,510,027 (+)NCBI
Celera4136,018,664 - 136,033,983 (+)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Differential adaptations in GABAergic and glutamatergic systems during ethanol withdrawal in male and female rats. Alele PE and Devaud LL, Alcohol Clin Exp Res. 2005 Jun;29(6):1027-34.
2. Sequential release of GABA by exocytosis and reversed uptake leads to neuronal swelling in simulated ischemia of hippocampal slices. Allen NJ, etal., J Neurosci. 2004 Apr 14;24(15):3837-49.
3. GABA reverse transport by the neuronal cotransporter GAT1: influence of internal chloride depletion. Bertram S, etal., Am J Physiol Cell Physiol. 2011 Nov;301(5):C1064-73. doi: 10.1152/ajpcell.00120.2011. Epub 2011 Jul 20.
4. Heterotopic neurons with altered inhibitory synaptic function in an animal model of malformation-associated epilepsy. Calcagnotto ME, etal., J Neurosci. 2002 Sep 1;22(17):7596-605.
5. Transport rates of GABA transporters: regulation by the N-terminal domain and syntaxin 1A. Deken SL, etal., Nat Neurosci. 2000 Oct;3(10):998-1003.
6. Regulation of GABA transporter mRNA and protein after photothrombotic infarct in rat brain. Frahm C, etal., J Comp Neurol. 2004 Oct 11;478(2):176-88.
7. Electrophysiology and immunohistochemistry in the hippocampal ca1 and the dentate gyrus of rats chronically exposed to 1-bromopropane, a substitute for specific chlorofluorocarbons. Fueta Y, etal., Neuroscience. 2004;124(3):593-603.
8. 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.
9. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
10. Adenosine A2A receptor stimulation decreases GAT-1-mediated GABA uptake in the globus pallidus of the rat. Gonzalez B, etal., Neuropharmacology. 2006 Jul;51(1):154-9. Epub 2006 May 30.
11. Cloning and expression of a rat brain GABA transporter. Guastella J, etal., Science 1990 Sep 14;249(4974):1303-6.
12. Substrate-mediated regulation of gamma-aminobutyric acid transporter 1 in rat brain. Hu J and Quick MW, Neuropharmacology. 2007 Oct 7;.
13. Involvement of membrane GABA transporter in alpha-latrotoxin-stimulated GABA release. Linetska MV, etal., Neurochem Int. 2004 Apr;44(5):303-12.
14. Transgenic mice overexpressing gamma-aminobutyric acid transporter subtype I develop obesity. Ma YH, etal., Cell Res. 2000 Dec;10(4):303-10.
15. In the developing rat hippocampus a tonic GABAA-mediated conductance selectively enhances the glutamatergic drive of principal cells. Marchionni I, etal., J Physiol. 2007 Jun 1;581(Pt 2):515-28. Epub 2007 Feb 22.
16. Role of the conserved glutamine 291 in the rat gamma-aminobutyric acid transporter rGAT-1. Mari SA, etal., Cell Mol Life Sci. 2006 Jan;63(1):100-11.
17. A quantitative analysis of cellular and synaptic localization of GAT-1 and GAT-3 in rat neocortex. Melone M, etal., Brain Struct Funct. 2015 Mar;220(2):885-97. doi: 10.1007/s00429-013-0690-8. Epub 2013 Dec 25.
18. Plasma membrane transporters GAT-1 and GAT-3 contribute to heterogeneity of GABAergic synapses in neocortex. Melone M, etal., Front Neuroanat. 2014 Jul 25;8:72. doi: 10.3389/fnana.2014.00072. eCollection 2014.
19. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
20. Axo-axonic structures in the medial prefrontal cortex of the rat: reduction by prenatal exposure to cocaine. Morrow BA, etal., J Neurosci. 2003 Jun 15;23(12):5227-34.
21. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
22. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
23. GOA pipeline RGD automated data pipeline
24. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
26. Oligomerization of the human serotonin transporter and of the rat GABA transporter 1 visualized by fluorescence resonance energy transfer microscopy in living cells. Schmid JA, etal., J Biol Chem. 2001 Feb 9;276(6):3805-10. Epub 2000 Nov 8.
27. Tiagabine, a gamma-amino-butyric acid transporter inhibitor impairs spatial learning of rats in the Morris water-maze. Schmitt U and Hiemke C, Behav Brain Res. 2002 Jul 18;133(2):391-4.
28. Anxiolytic-like effects of acute and chronic GABA transporter inhibition in rats. Schmitt U, etal., J Neural Transm. 2002 May;109(5-6):871-80.
29. Mutations within an intramembrane leucine heptad repeat disrupt oligomer formation of the rat GABA transporter 1. Scholze P, etal., J Biol Chem 2002 Nov 15;277(46):43682-90.
30. Down-regulation of GAT-1 mRNA expression in the microdissected hypothalamic medial preoptic area of rat offspring exposed maternally to ethinylestradiol. Shibutani M, etal., Toxicology. 2005 Mar 1;208(1):35-48.
31. Functionally independent subunits in the oligomeric structure of the GABA cotransporter rGAT1. Soragna A, etal., Cell Mol Life Sci. 2005 Dec;62(23):2877-85.
32. Relationships between glutamine, glutamate, and GABA in nerve endings under Pb-toxicity conditions. Struzynska L and Sulkowski G, J Inorg Biochem. 2004 Jun;98(6):951-8.
33. Effect of levetiracetam on molecular regulation of hippocampal glutamate and GABA transporters in rats with chronic seizures induced by amygdalar FeCl3 injection. Ueda Y, etal., Brain Res. 2007 Jun 2;1151:55-61. Epub 2007 Mar 13.
34. Trafficking of the plasma membrane gamma-aminobutyric acid transporter GAT1. Size and rates of an acutely recycling pool. Wang D and Quick MW, J Biol Chem. 2005 May 13;280(19):18703-9. Epub 2005 Mar 18.
35. Syntaxin 1A inhibits GABA flux, efflux, and exchange mediated by the rat brain GABA transporter GAT1. Wang D, etal., Mol Pharmacol. 2003 Oct;64(4):905-13.
36. Nonvesicular inhibitory neurotransmission via reversal of the GABA transporter GAT-1. Wu Y, etal., Neuron. 2007 Dec 6;56(5):851-65. doi: 10.1016/j.neuron.2007.10.021.
37. Hypoalgesia in mice lacking GABA transporter subtype 1. Xu YF, etal., J Neurosci Res. 2007 Oct 5;.
38. Changes in GABA transporters in the rat hippocampus after kainate-induced neuronal injury: decrease in GAT-1 and GAT-3 but upregulation of betaine/GABA transporter BGT-1. Zhu XM and Ong WY, J Neurosci Res. 2004 Aug 1;77(3):402-9.
Additional References at PubMed
PMID:9169433   PMID:10973981   PMID:11453549   PMID:12381817   PMID:12482883   PMID:12764157   PMID:15234345   PMID:15479642   PMID:17724084   PMID:19020038   PMID:19363027   PMID:21131297  
PMID:22871113   PMID:23443081   PMID:24359690   PMID:25798861   PMID:26390912   PMID:30790582  


Genomics

Comparative Map Data
Slc6a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24147,448,961 - 147,482,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4147,466,965 - 147,482,293 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4152,852,597 - 152,867,957 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.04148,633,475 - 148,648,835 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.04147,262,896 - 147,278,256 (+)NCBIRnor_WKY
Rnor_6.04146,258,842 - 146,292,176 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4146,276,862 - 146,292,213 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04209,552,452 - 209,585,794 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44150,249,867 - 150,265,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14150,494,707 - 150,510,027 (+)NCBI
Celera4136,018,664 - 136,033,983 (+)NCBICelera
Cytogenetic Map4q42NCBI
SLC6A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38310,992,748 - 11,039,247 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl310,992,186 - 11,039,247 (+)EnsemblGRCh38hg38GRCh38
GRCh37311,034,434 - 11,080,933 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36311,009,453 - 11,055,935 (+)NCBINCBI36Build 36hg18NCBI36
Build 34311,009,455 - 11,055,934NCBI
Celera310,969,866 - 11,016,381 (+)NCBICelera
Cytogenetic Map3p25.3ENTREZGENE
HuRef310,969,346 - 11,015,750 (+)NCBIHuRef
CHM1_1310,984,449 - 11,030,960 (+)NCBICHM1_1
T2T-CHM13v2.0310,987,230 - 11,033,712 (+)NCBIT2T-CHM13v2.0
Slc6a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396114,259,596 - 114,294,491 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6114,259,596 - 114,294,493 (+)EnsemblGRCm39 Ensembl
GRCm386114,282,635 - 114,317,525 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6114,282,635 - 114,317,532 (+)EnsemblGRCm38mm10GRCm38
MGSCv376114,232,629 - 114,267,519 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366114,248,369 - 114,283,117 (+)NCBIMGSCv36mm8
Celera6116,104,017 - 116,138,918 (+)NCBICelera
Cytogenetic Map6E3NCBI
Slc6a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542913,930,905 - 13,947,389 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542913,930,899 - 13,946,010 (+)NCBIChiLan1.0ChiLan1.0
SLC6A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1311,296,014 - 11,323,624 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl311,296,023 - 11,323,624 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0310,930,455 - 10,976,968 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SLC6A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1207,341,071 - 7,383,197 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl207,341,072 - 7,383,287 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha207,376,561 - 7,418,616 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0207,371,107 - 7,413,167 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl207,371,116 - 7,413,202 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1207,087,370 - 7,129,439 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0207,443,566 - 7,485,634 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0207,415,545 - 7,457,611 (-)NCBIUU_Cfam_GSD_1.0
Slc6a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494216,512,443 - 16,550,935 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366022,357,607 - 2,379,061 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049366022,359,151 - 2,397,346 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1367,179,765 - 67,197,107 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11367,156,786 - 67,199,092 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21374,321,093 - 74,341,573 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12247,033,436 - 47,076,785 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2247,033,467 - 47,078,844 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041119,446,780 - 119,492,006 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc6a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624943631,632 - 662,902 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624943632,534 - 662,924 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc6a1
110 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:347
Count of miRNA genes:183
Interacting mature miRNAs:249
Transcripts:ENSRNOT00000009705
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
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)485253748150276390Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105789505150789505Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
2293840Kiddil9Kidney dilation QTL 92.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)4120926564148090731Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat

Markers in Region
Gabt1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24147,481,972 - 147,482,253 (+)MAPPERmRatBN7.2
Rnor_6.04146,291,854 - 146,292,134NCBIRnor6.0
Rnor_5.04209,585,472 - 209,585,752UniSTSRnor5.0
RGSC_v3.44150,264,866 - 150,265,146UniSTSRGSC3.4
Celera4136,033,663 - 136,033,943UniSTS
Cytogenetic Map4q42UniSTS
Slc6a1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24147,473,255 - 147,474,142 (+)MAPPERmRatBN7.2
Rnor_6.04146,283,137 - 146,284,023NCBIRnor6.0
Rnor_5.04209,576,755 - 209,577,641UniSTSRnor5.0
Celera4136,024,946 - 136,025,832UniSTS
Cytogenetic Map4q42UniSTS


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 68
Low 2 3 2 2 2 2 6 14 24 2 2
Below cutoff 3 26 26 13 12 13 6 6 8 16 6 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009705   ⟹   ENSRNOP00000009705
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4147,466,965 - 147,482,293 (+)Ensembl
Rnor_6.0 Ensembl4146,276,862 - 146,292,213 (+)Ensembl
RefSeq Acc Id: NM_024371   ⟹   NP_077347
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24147,466,974 - 147,482,293 (+)NCBI
Rnor_6.04146,276,855 - 146,292,174 (+)NCBI
Rnor_5.04209,552,452 - 209,585,794 (+)NCBI
RGSC_v3.44150,249,867 - 150,265,186 (+)RGD
Celera4136,018,664 - 136,033,983 (+)RGD
Sequence:
RefSeq Acc Id: XM_006237059   ⟹   XP_006237121
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24147,448,961 - 147,482,295 (+)NCBI
Rnor_6.04146,258,842 - 146,292,176 (+)NCBI
Rnor_5.04209,552,452 - 209,585,794 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_077347 (Get FASTA)   NCBI Sequence Viewer  
  XP_006237121 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA63487 (Get FASTA)   NCBI Sequence Viewer  
  EDL91564 (Get FASTA)   NCBI Sequence Viewer  
  EDL91565 (Get FASTA)   NCBI Sequence Viewer  
  P23978 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_077347   ⟸   NM_024371
- UniProtKB: P23978 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006237121   ⟸   XM_006237059
- Peptide Label: isoform X1
- UniProtKB: P23978 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000009705   ⟸   ENSRNOT00000009705

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P23978-F1-model_v2 AlphaFold P23978 1-599 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620533 AgrOrtholog
BioCyc Gene G2FUF-43356 BioCyc
Ensembl Genes ENSRNOG00000006527 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000009705 ENTREZGENE
  ENSRNOP00000009705.4 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000009705 ENTREZGENE
  ENSRNOT00000009705.7 UniProtKB/Swiss-Prot
InterPro Na/ntran_symport UniProtKB/Swiss-Prot
  Na/ntran_symport_GABA_GAT1 UniProtKB/Swiss-Prot
  SNS_sf UniProtKB/Swiss-Prot
KEGG Report rno:79212 UniProtKB/Swiss-Prot
NCBI Gene 79212 ENTREZGENE
PANTHER PTHR11616 UniProtKB/Swiss-Prot
  SODIUM- AND CHLORIDE-DEPENDENT GABA TRANSPORTER 1 UniProtKB/Swiss-Prot
Pfam SNF UniProtKB/Swiss-Prot
PharmGKB SLC6A1 RGD
PhenoGen Slc6a1 PhenoGen
PRINTS GAT1TRNSPORT UniProtKB/Swiss-Prot
  NANEUSMPORT UniProtKB/Swiss-Prot
PROSITE NA_NEUROTRAN_SYMP_1 UniProtKB/Swiss-Prot
  NA_NEUROTRAN_SYMP_2 UniProtKB/Swiss-Prot
  NA_NEUROTRAN_SYMP_3 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF161070 UniProtKB/Swiss-Prot
UniProt P23978 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Slc6a1  solute carrier family 6 member 1  Slc6a1  solute carrier family 6 (neurotransmitter transporter), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc6a1  solute carrier family 6 (neurotransmitter transporter), member 1  Slc6a1  solute carrier family 6 (neurotransmitter transporter, GABA), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Slc6a1  solute carrier family 6 (neurotransmitter transporter, GABA), member 1    GABA transporter protein  Name updated 1299863 APPROVED
2004-09-10 Slc6a1  GABA transporter protein  Gabt1    Symbol and Name updated 1299863 APPROVED
2002-08-07 Gabt1  GABA transporter protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_protein 599 amino acids with predicted molecular weight of 67 kDa 632739
gene_regulation sodium-and chloride-dependent, high affinity for GABA 632739