Slc6a11 (solute carrier family 6 member 11) - Rat Genome Database

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Gene: Slc6a11 (solute carrier family 6 member 11) Rattus norvegicus
Analyze
Symbol: Slc6a11
Name: solute carrier family 6 member 11
RGD ID: 628737
Description: Enables amino acid binding activity and gamma-aminobutyric acid:sodium:chloride symporter activity. Involved in neurotransmitter transport and response to xenobiotic stimulus. Located in cell projection and plasma membrane. Is active in GABA-ergic synapse; postsynaptic membrane; and presynaptic membrane. Biomarker of visual epilepsy. Orthologous to human SLC6A11 (solute carrier family 6 member 11); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: GABA transporter GAT-3; Gabt4; GAT-3; Gat3; sodium- and chloride-dependent GABA transporter 3; solute carrier family 6 (neurotransmitter transporter), member 11; solute carrier family 6 (neurotransmitter transporter, GABA), member 11
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
GRCr84148,853,557 - 148,968,895 (+)NCBIGRCr8
mRatBN7.24147,297,972 - 147,413,319 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4147,297,969 - 147,413,443 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4152,683,360 - 152,799,077 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04148,464,228 - 148,579,951 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04147,093,650 - 147,209,370 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04146,106,386 - 146,223,228 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4146,106,386 - 146,223,228 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04209,399,633 - 209,516,846 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44150,067,441 - 150,196,237 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14150,312,278 - 150,441,202 (+)NCBI
Celera4135,850,824 - 135,965,196 (+)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Molecular heterogeneity of the gamma-aminobutyric acid (GABA) transport system. Cloning of two novel high affinity GABA transporters from rat brain. Borden LA, etal., J Biol Chem 1992 Oct 15;267(29):21098-104.
2. Functional expression and CNS distribution of a beta-alanine-sensitive neuronal GABA transporter. Clark JA, etal., Neuron 1992 Aug;9(2):337-48.
3. Neuronal and glial localization of GABA transporter immunoreactivity in the myenteric plexus. Fletcher EL, etal., Cell Tissue Res 2002 Jun;308(3):339-46.
4. 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.
5. 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.
6. 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.
7. Transient focal ischemia triggers neuronal expression of GAT-3 in the rat perilesional cortex. Melone M, etal., Neurobiol Dis 2003 Oct;14(1):120-32.
8. Postnatal development of high-affinity plasma membrane GABA transporters GAT-2 and GAT-3 in the rat cerebral cortex. Minelli A, etal., Brain Res Dev Brain Res 2003 Apr 14;142(1):7-18.
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. GABA plasma membrane transporters, GAT-1 and GAT-3, display different distributions in the rat hippocampus. Ribak CE, etal., J Comp Neurol. 1996 Apr 15;367(4):595-606. doi: 10.1002/(SICI)1096-9861(19960415)367:4<595::AID-CNE9>3.0.CO;2-#.
14. 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.
15. Expression of GABA transporters, GAT-1 and GAT-3, in the cerebral cortex and thalamus of the rat during postnatal development. Vitellaro-Zuccarello L, etal., Cell Tissue Res. 2003 Sep;313(3):245-57. Epub 2003 Jul 24.
16. Functional characterization of Zn2(+)-sensitive GABA transporter expressed in primary cultures of astrocytes from rat cerebral cortex. Wu Q, etal., Brain Res. 2006 Feb 23;1075(1):100-9. Epub 2006 Feb 7.
Additional References at PubMed
PMID:8420981   PMID:19288275   PMID:20851161   PMID:21410779   PMID:22616751   PMID:22871113   PMID:23381899   PMID:24359690   PMID:24534009   PMID:27886179   PMID:29476059   PMID:29742425  
PMID:29930131  


Genomics

Comparative Map Data
Slc6a11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84148,853,557 - 148,968,895 (+)NCBIGRCr8
mRatBN7.24147,297,972 - 147,413,319 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4147,297,969 - 147,413,443 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4152,683,360 - 152,799,077 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04148,464,228 - 148,579,951 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04147,093,650 - 147,209,370 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04146,106,386 - 146,223,228 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4146,106,386 - 146,223,228 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04209,399,633 - 209,516,846 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44150,067,441 - 150,196,237 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14150,312,278 - 150,441,202 (+)NCBI
Celera4135,850,824 - 135,965,196 (+)NCBICelera
Cytogenetic Map4q42NCBI
SLC6A11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38310,816,228 - 10,940,714 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl310,816,201 - 10,940,714 (+)EnsemblGRCh38hg38GRCh38
GRCh37310,857,913 - 10,982,400 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36310,832,917 - 10,955,146 (+)NCBINCBI36Build 36hg18NCBI36
Build 34310,832,916 - 10,955,146NCBI
Celera310,793,362 - 10,915,588 (+)NCBICelera
Cytogenetic Map3p25.3NCBI
HuRef310,792,720 - 10,914,941 (+)NCBIHuRef
CHM1_1310,807,894 - 10,930,156 (+)NCBICHM1_1
T2T-CHM13v2.0310,810,506 - 10,935,188 (+)NCBIT2T-CHM13v2.0
Slc6a11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396114,108,202 - 114,226,847 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6114,108,202 - 114,226,913 (+)EnsemblGRCm39 Ensembl
GRCm386114,131,241 - 114,249,886 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6114,131,241 - 114,249,952 (+)EnsemblGRCm38mm10GRCm38
MGSCv376114,081,235 - 114,199,880 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366114,096,836 - 114,215,481 (+)NCBIMGSCv36mm8
Celera6115,952,329 - 116,070,890 (+)NCBICelera
Cytogenetic Map6E3NCBI
cM Map652.98NCBI
Slc6a11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542913,774,455 - 13,880,690 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542913,774,455 - 13,880,690 (+)NCBIChiLan1.0ChiLan1.0
SLC6A11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2210,813,514 - 10,938,397 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1310,818,275 - 10,943,122 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0310,753,412 - 10,878,333 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1311,101,054 - 11,225,277 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl311,101,336 - 11,222,948 (+)Ensemblpanpan1.1panPan2
SLC6A11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1207,431,015 - 7,559,903 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl207,433,194 - 7,560,564 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha207,466,514 - 7,595,315 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0207,461,064 - 7,589,938 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl207,461,068 - 7,590,345 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1207,177,316 - 7,306,087 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0207,533,511 - 7,658,605 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0207,505,503 - 7,630,735 (-)NCBIUU_Cfam_GSD_1.0
Slc6a11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494216,345,399 - 16,469,940 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366022,439,813 - 2,564,313 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366022,437,653 - 2,564,309 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1366,998,336 - 67,115,907 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11366,998,113 - 67,115,918 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21374,203,510 - 74,218,549 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12246,857,117 - 46,978,652 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2246,857,569 - 46,978,088 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041119,545,103 - 119,668,158 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc6a11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624943692,513 - 804,023 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624943694,447 - 803,993 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc6a11
627 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:40
Count of miRNA genes:34
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000008342
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
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
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
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
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
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293840Kiddil9Kidney dilation QTL 92.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)4120926564148090731Rat
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
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
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
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
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
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
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
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
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
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


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

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 52
Low 10 1 20 1 10
Below cutoff 13 17 8 10 8 5 5 2 11 26 9 5

Sequence


RefSeq Acc Id: ENSRNOT00000008342   ⟹   ENSRNOP00000008342
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4147,297,969 - 147,413,443 (+)Ensembl
Rnor_6.0 Ensembl4146,106,386 - 146,223,228 (+)Ensembl
RefSeq Acc Id: NM_024372   ⟹   NP_077348
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84148,853,557 - 148,968,895 (+)NCBI
mRatBN7.24147,297,972 - 147,413,319 (+)NCBI
Rnor_6.04146,106,386 - 146,223,228 (+)NCBI
Rnor_5.04209,399,633 - 209,516,846 (+)NCBI
RGSC_v3.44150,067,441 - 150,196,237 (+)RGD
Celera4135,850,824 - 135,965,196 (+)RGD
Sequence:
RefSeq Acc Id: NP_077348   ⟸   NM_024372
- UniProtKB: P31647 (UniProtKB/Swiss-Prot),   A6IBU5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008342   ⟸   ENSRNOT00000008342

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P31647-F1-model_v2 AlphaFold P31647 1-627 view protein structure

Transcriptome

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

Promoters
RGD ID:13693316
Promoter ID:EPDNEW_R3840
Type:single initiation site
Name:Slc6a11_1
Description:solute carrier family 6 member 11
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_6.04146,106,361 - 146,106,421EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628737 AgrOrtholog
BioCyc Gene G2FUF-43357 BioCyc
Ensembl Genes ENSRNOG00000005697 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055008132 UniProtKB/Swiss-Prot
  ENSRNOG00060012908 UniProtKB/Swiss-Prot
  ENSRNOG00065028538 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000008342 ENTREZGENE
  ENSRNOT00000008342.6 UniProtKB/Swiss-Prot
  ENSRNOT00055013751 UniProtKB/Swiss-Prot
  ENSRNOT00060021963 UniProtKB/Swiss-Prot
  ENSRNOT00065049209 UniProtKB/Swiss-Prot
InterPro Na/ntran_symport UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na/ntran_symport_GABA_GAT3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SNS_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:79213 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 79213 ENTREZGENE
PANTHER PTHR11616 UniProtKB/Swiss-Prot
  SODIUM- AND CHLORIDE-DEPENDENT GABA TRANSPORTER 3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SODIUM/CHLORIDE DEPENDENT TRANSPORTER UniProtKB/TrEMBL
Pfam SNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SLC6A11 RGD
PhenoGen Slc6a11 PhenoGen
PRINTS GAT3TRNSPORT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NANEUSMPORT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NA_NEUROTRAN_SYMP_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NA_NEUROTRAN_SYMP_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NA_NEUROTRAN_SYMP_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005697 RatGTEx
  ENSRNOG00055008132 RatGTEx
  ENSRNOG00060012908 RatGTEx
  ENSRNOG00065028538 RatGTEx
Superfamily-SCOP SNF-like UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
UniProt A6IBU5 ENTREZGENE, UniProtKB/TrEMBL
  P31647 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Slc6a11  solute carrier family 6 member 11  Slc6a11  solute carrier family 6 (neurotransmitter transporter), member 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc6a11  solute carrier family 6 (neurotransmitter transporter), member 11  Slc6a11  solute carrier family 6 (neurotransmitter transporter, GABA), member 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Slc6a11  solute carrier family 6 (neurotransmitter transporter, GABA), member 11      Symbol and Name updated 629477 APPROVED
2003-03-06 Slc6a11  solute carrier family 6 (neurotransmitter transporter, GABA), member 11  Gabt4  GABA transporter GAT-3  Data merged from RGD:620534 628472 PROVISIONAL
2003-02-27 Slc6a11  solute carrier family 6 (neurotransmitter transporter, GABA), member 11      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-08-07 Gabt4  GABA transporter GAT-3      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation transport activity is inhibited by beta-alanine 729938