Slc6a13 (solute carrier family 6 member 13) - Rat Genome Database

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Pathways
Gene: Slc6a13 (solute carrier family 6 member 13) Rattus norvegicus
Analyze
Symbol: Slc6a13
Name: solute carrier family 6 member 13
RGD ID: 620788
Description: Enables amino acid binding activity; creatine transmembrane transporter activity; and organic acid:sodium symporter activity. Involved in gamma-aminobutyric acid import; neurotransmitter transport; and organic acid transmembrane transport. Located in plasma membrane. Orthologous to human SLC6A13 (solute carrier family 6 member 13); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: GAT-2; sodium- and chloride-dependent GABA transporter 2; solute carrier family 6 (neurotransmitter transporter), member 13; solute carrier family 6 (neurotransmitter transporter, GABA), member 13
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84156,211,381 - 156,248,491 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4156,211,462 - 156,248,489 (+)EnsemblGRCr8
mRatBN7.24154,539,246 - 154,577,784 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4154,540,468 - 154,576,152 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4160,806,682 - 160,842,331 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04156,590,166 - 156,625,811 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04155,213,564 - 155,249,248 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04153,874,942 - 153,912,185 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4153,874,852 - 153,912,155 (+)Ensemblrn6Rnor6.0
Rnor_5.04220,962,968 - 221,000,197 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44157,736,264 - 157,771,945 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4143,379,280 - 143,414,859 (+)NCBICelera
RGSC_v3.14157,981,199 - 158,016,881 (+)NCBI
Cytogenetic Map4q42NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-palmitoylglycerol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
alachlor  (EXP)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
calcium silicate  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
coumarin  (EXP)
crocidolite asbestos  (ISO)
dioxygen  (ISO)
diquat  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethyl methanesulfonate  (ISO)
flavonoids  (EXP)
fluconazole  (EXP)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
gamma-aminobutyric acid  (ISO)
graphite  (EXP)
GW 4064  (ISO)
hydralazine  (ISO)
icariin  (ISO)
leflunomide  (EXP)
Licochalcone B  (ISO)
lipopolysaccharide  (ISO)
methamphetamine  (EXP)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
Muraglitazar  (EXP)
N-nitrosodiethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nitrofen  (EXP)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (EXP)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
resveratrol  (ISO)
rotenone  (EXP,ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SCH 23390  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
Theaflavin 3,3'-digallate  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
tremolite asbestos  (ISO)
triadimefon  (EXP)
triclosan  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (EXP)
valproic acid  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

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. Neuronal and glial localization of GABA transporter immunoreactivity in the myenteric plexus. Fletcher EL, etal., Cell Tissue Res 2002 Jun;308(3):339-46.
3. 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.
4. Involvement of γ-aminobutyric acid transporter 2 in the hepatic uptake of taurine in rats. Ikeda S, etal., Am J Physiol Gastrointest Liver Physiol. 2012 Aug 1;303(3):G291-7. doi: 10.1152/ajpgi.00388.2011. Epub 2012 Jun 7.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Carnitine precursor γ-butyrobetaine is a novel substrate of the Na(+)- and Cl(-)-dependent GABA transporter Gat2. Nakanishi T, etal., Drug Metab Pharmacokinet. 2011;26(6):632-6. doi: 10.2133/dmpk.dmpk-11-nt-053. Epub 2011 Oct 12.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. GOA pipeline RGD automated data pipeline
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. γ-Aminobutyric acid transporter 2 mediates the hepatic uptake of guanidinoacetate, the creatine biosynthetic precursor, in rats. Tachikawa M, etal., PLoS One. 2012;7(2):e32557. doi: 10.1371/journal.pone.0032557. Epub 2012 Feb 27.
11. Deletion of the γ-aminobutyric acid transporter 2 (GAT2 and SLC6A13) gene in mice leads to changes in liver and brain taurine contents. Zhou Y, etal., J Biol Chem. 2012 Oct 12;287(42):35733-35746. doi: 10.1074/jbc.M112.368175. Epub 2012 Aug 15.
Additional References at PubMed
PMID:19056867  


Genomics

Comparative Map Data
Slc6a13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84156,211,381 - 156,248,491 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4156,211,462 - 156,248,489 (+)EnsemblGRCr8
mRatBN7.24154,539,246 - 154,577,784 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4154,540,468 - 154,576,152 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4160,806,682 - 160,842,331 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04156,590,166 - 156,625,811 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04155,213,564 - 155,249,248 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04153,874,942 - 153,912,185 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4153,874,852 - 153,912,155 (+)Ensemblrn6Rnor6.0
Rnor_5.04220,962,968 - 221,000,197 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44157,736,264 - 157,771,945 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4143,379,280 - 143,414,859 (+)NCBICelera
RGSC_v3.14157,981,199 - 158,016,881 (+)NCBI
Cytogenetic Map4q42NCBI
SLC6A13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812220,622 - 262,836 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12220,621 - 262,873 (-)Ensemblhg38GRCh38
GRCh3712329,788 - 372,002 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612200,052 - 242,263 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3412200,051 - 242,263NCBI
Celera121,938,637 - 1,980,875 (-)NCBICelera
Cytogenetic Map12p13.33NCBI
HuRef12182,903 - 225,079 (-)NCBIHuRef
CHM1_112328,777 - 371,038 (-)NCBICHM1_1
T2T-CHM13v2.012217,551 - 259,667 (-)NCBIT2T-CHM13v2.0
Slc6a13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396121,277,247 - 121,314,680 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6121,277,186 - 121,314,692 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm386121,300,288 - 121,337,721 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6121,300,227 - 121,337,733 (+)Ensemblmm10GRCm38
MGSCv376121,250,314 - 121,287,736 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv366121,265,915 - 121,303,337 (+)NCBIMGSCv36mm8
Celera6123,134,593 - 123,173,892 (+)NCBICelera
Cytogenetic Map6F1NCBI
cM Map657.22NCBI
Slc6a13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554546,866,740 - 6,940,734 (+)Ensembl
ChiLan1.0NW_0049554546,866,740 - 6,940,686 (+)NCBIChiLan1.0ChiLan1.0
SLC6A13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2105,705,028 - 5,756,691 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1125,701,785 - 5,761,918 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012279,434 - 334,226 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112255,141 - 296,926 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12255,141 - 296,926 (-)EnsemblpanPan2panpan1.1
SLC6A13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12742,302,762 - 42,338,911 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2742,270,448 - 42,336,464 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha274,345,500 - 4,381,643 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02742,660,870 - 42,697,019 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2742,660,893 - 42,694,550 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12742,601,961 - 42,637,965 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02742,573,532 - 42,609,397 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0273,705,273 - 3,741,637 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Slc6a13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945108,728,385 - 108,767,931 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936606415,177 - 455,721 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936606416,170 - 455,720 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl567,577,197 - 67,614,054 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1567,574,149 - 67,617,513 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2569,865,018 - 69,905,417 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111223,912 - 274,499 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl11223,793 - 264,719 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660638,072,317 - 8,116,503 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Slc6a13
809 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:61
Count of miRNA genes:58
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000018083
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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)4146370897184426481Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4134095016179095016Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4149763204169799698Rat
61446Coreg2Compensatory renal growth QTL 23.5kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)4150095743159267220Rat
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)4146370897184426481Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
1358364Sradr4Stress Responsive Adrenal Weight QTL 44.92adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)4131384565176384565Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
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)4112427331157427331Rat
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)4112427331157427331Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4123870974168870974Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4117559384162559384Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4140059299181024663Rat
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)4146370897184426481Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4111383604156383604Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4106848959168870974Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4127263297172263297Rat
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)4126334185171334185Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4147299608184426481Rat
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)4146370897184426481Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4111383604156383604Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4124700988169700988Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155834926184426481Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4134199006168870974Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4148121375176967367Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
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)4116184844161184844Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
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)4146370897184426481Rat
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)4148834094168870974Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
3 9 67 140 90 90 59 28 59 6 266 116 123 81 60 31 9 9

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001439614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001439615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001439616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_133623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M95762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000018083   ⟹   ENSRNOP00000018083
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4156,211,462 - 156,248,489 (+)Ensembl
mRatBN7.2 Ensembl4154,540,468 - 154,576,152 (+)Ensembl
Rnor_6.0 Ensembl4153,876,149 - 153,911,966 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000079744   ⟹   ENSRNOP00000071638
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4156,216,236 - 156,248,489 (+)Ensembl
mRatBN7.2 Ensembl4154,544,022 - 154,576,152 (+)Ensembl
Rnor_6.0 Ensembl4153,874,852 - 153,912,155 (+)Ensembl
RefSeq Acc Id: NM_133623   ⟹   NP_598307
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,212,606 - 156,248,285 (+)NCBI
mRatBN7.24154,540,468 - 154,576,152 (+)NCBI
Rnor_6.04153,876,149 - 153,911,966 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
RGSC_v3.44157,736,264 - 157,771,945 (+)RGD
Celera4143,379,280 - 143,414,859 (+)RGD
Sequence:
RefSeq Acc Id: XM_006237218   ⟹   XP_006237280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,211,381 - 156,248,491 (+)NCBI
mRatBN7.24154,539,246 - 154,577,784 (+)NCBI
Rnor_6.04153,874,942 - 153,912,185 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006237219   ⟹   XP_006237281
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,211,467 - 156,248,491 (+)NCBI
mRatBN7.24154,539,335 - 154,577,784 (+)NCBI
Rnor_6.04153,874,946 - 153,912,185 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006237220   ⟹   XP_006237282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,211,381 - 156,248,491 (+)NCBI
mRatBN7.24154,539,246 - 154,577,784 (+)NCBI
Rnor_6.04153,874,942 - 153,912,185 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006237221   ⟹   XP_006237283
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,211,467 - 156,248,491 (+)NCBI
mRatBN7.24154,539,337 - 154,577,784 (+)NCBI
Rnor_6.04153,874,946 - 153,912,185 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006237222   ⟹   XP_006237284
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,216,141 - 156,248,491 (+)NCBI
mRatBN7.24154,544,000 - 154,577,784 (+)NCBI
Rnor_6.04153,879,688 - 153,912,172 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006237223   ⟹   XP_006237285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,214,261 - 156,248,491 (+)NCBI
mRatBN7.24154,542,114 - 154,577,784 (+)NCBI
Rnor_6.04153,877,735 - 153,912,185 (+)NCBI
Rnor_5.04220,962,968 - 221,000,197 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039106983   ⟹   XP_038962911
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,238,805 - 156,248,491 (+)NCBI
mRatBN7.24154,568,052 - 154,577,784 (+)NCBI
RefSeq Acc Id: XM_063285457   ⟹   XP_063141527
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84156,216,169 - 156,248,491 (+)NCBI
RefSeq Acc Id: NP_598307   ⟸   NM_133623
- UniProtKB: P31646 (UniProtKB/Swiss-Prot),   A6ILC5 (UniProtKB/TrEMBL),   R9PXV0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006237280   ⟸   XM_006237218
- Peptide Label: isoform X1
- UniProtKB: R9PXV0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006237282   ⟸   XM_006237220
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006237281   ⟸   XM_006237219
- Peptide Label: isoform X1
- UniProtKB: R9PXV0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006237283   ⟸   XM_006237221
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006237285   ⟸   XM_006237223
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006237284   ⟸   XM_006237222
- Peptide Label: isoform X3
- UniProtKB: R9PXV0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071638   ⟸   ENSRNOT00000079744
Ensembl Acc Id: ENSRNOP00000018083   ⟸   ENSRNOT00000018083
RefSeq Acc Id: XP_038962911   ⟸   XM_039106983
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063141527   ⟸   XM_063285457
- Peptide Label: isoform X4

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P31646-F1-model_v2 AlphaFold P31646 1-602 view protein structure

Transcriptome

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

Promoters
RGD ID:13693364
Promoter ID:EPDNEW_R3888
Type:single initiation site
Name:Slc6a13_1
Description:solute carrier family 6 member 13
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_6.04153,875,005 - 153,875,065EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620788 AgrOrtholog
BioCyc Gene G2FUF-43178 BioCyc
Ensembl Genes ENSRNOG00000012876 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018083 ENTREZGENE
  ENSRNOT00000018083.4 UniProtKB/Swiss-Prot
  ENSRNOT00000079744 ENTREZGENE
InterPro Na/ntran_symport UniProtKB/Swiss-Prot
  Na/ntran_symport_GABA_GAT2 UniProtKB/Swiss-Prot
  SNS_sf UniProtKB/Swiss-Prot
KEGG Report rno:171163 UniProtKB/Swiss-Prot
NCBI Gene 171163 ENTREZGENE
PANTHER PTHR11616 UniProtKB/Swiss-Prot
  SODIUM- AND CHLORIDE-DEPENDENT GABA TRANSPORTER 2 UniProtKB/Swiss-Prot
Pfam SNF UniProtKB/Swiss-Prot
PhenoGen Slc6a13 PhenoGen
PRINTS GAT2TRNSPORT 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
RatGTEx ENSRNOG00000012876 RatGTEx
Superfamily-SCOP SSF161070 UniProtKB/Swiss-Prot
UniProt A0A0G2K0Z3 ENTREZGENE, UniProtKB/TrEMBL
  A6ILC5 ENTREZGENE, UniProtKB/TrEMBL
  P31646 ENTREZGENE
  R9PXV0 ENTREZGENE, UniProtKB/TrEMBL
  S6A13_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Slc6a13  solute carrier family 6 member 13  Slc6a13  solute carrier family 6 (neurotransmitter transporter), member 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc6a13  solute carrier family 6 (neurotransmitter transporter), member 13  Slc6a13  solute carrier family 6 (neurotransmitter transporter, GABA), member 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Slc6a13  solute carrier family 6 (neurotransmitter transporter, GABA), member 13      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Slc6a13  solute carrier family 6 (neurotransmitter transporter, GABA), member 13      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression protein found in glial cells in the gastrointestinal tract 730059
gene_expression mRNA expressed in brain, retina, and some peripheral tissues 727560
gene_protein Km for GABA approximately 10 microM 727560
gene_protein predicted protein contains 602 amino acid residues 727560