Slc6a2 (solute carrier family 6 member 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Slc6a2 (solute carrier family 6 member 2) Rattus norvegicus
Analyze
Symbol: Slc6a2
Name: solute carrier family 6 member 2
RGD ID: 621822
Description: Enables alpha-tubulin binding activity; beta-tubulin binding activity; and norepinephrine:sodium symporter activity. Involved in norepinephrine transport and response to xenobiotic stimulus. Located in cell surface. Is active in presynaptic membrane and synaptic vesicle membrane. Biomarker of depressive disorder. Human ortholog(s) of this gene implicated in alcohol dependence; hypertension; and neurocirculatory asthenia. Orthologous to human SLC6A2 (solute carrier family 6 member 2); PARTICIPATES IN alfentanil pharmacodynamics pathway; bupivacaine pharmacodynamics pathway; buprenorphine pharmacodynamics pathway; INTERACTS WITH (R)-noradrenaline; (S)-amphetamine; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: NaCl-dependent norepinephrine transporter; Net; neurotransmitter transporter, noradrenal; norepinephrine transporter; sodium-dependent noradrenaline transporter; solute carrier family 6 (neurotransmitter transporter), member 2; solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2; solute carrier family 6 (neurotransmitter transporter,noradrenalin), member 2; transmembrane region 4..26 transmembrane region 55..77 transmembrane region 105..123 transmembrane region 136..157
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81930,183,289 - 30,228,292 (-)NCBIGRCr8
mRatBN7.21914,010,292 - 14,055,317 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1914,010,386 - 14,050,357 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1915,705,759 - 15,746,177 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01920,900,533 - 20,940,947 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01923,846,114 - 23,886,538 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01915,391,682 - 15,431,274 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1915,391,581 - 15,431,274 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01926,487,820 - 26,527,769 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41915,098,281 - 15,139,898 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11915,103,106 - 15,144,724 (-)NCBI
Celera1913,934,272 - 13,973,888 (-)NCBICelera
Cytogenetic Map19p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(20S)-ginsenoside Rg3  (ISO)
(R)-noradrenaline  (EXP,ISO)
(R)-octopamine  (ISO)
(S)-amphetamine  (EXP,ISO)
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,5-dimethoxy-4-bromophenethylamine  (ISO)
2-phenylethylamine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
aflatoxin B1  (ISO)
aminorex  (EXP)
ammonium chloride  (EXP)
amphetamine  (ISO)
antimycin A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
Azoxymethane  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bupivacaine  (ISO)
buta-1,3-diene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
chlorpyrifos  (EXP,ISO)
clozapine  (EXP)
cobalt atom  (ISO)
cocaine  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
decabromodiphenyl ether  (EXP)
desferrioxamine B  (EXP)
desipramine  (EXP,ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dieldrin  (EXP)
dopamine  (ISO)
elemental selenium  (ISO)
Erionite  (ISO)
flavonoids  (EXP)
fluoxetine  (ISO)
folic acid  (ISO)
fonofos  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
hydralazine  (ISO)
hydrazine  (ISO)
hydrogen sulfide  (ISO)
kainic acid  (ISO)
ketamine  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lidocaine  (ISO)
maneb  (ISO)
methamphetamine  (ISO)
monensin A  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-methyl-4-phenylpyridinium  (EXP,ISO)
nickel atom  (EXP,ISO)
nisoxetine  (ISO)
nortriptyline  (ISO)
octopamine  (ISO)
ozone  (ISO)
paraquat  (ISO)
parathion  (ISO)
PCB138  (ISO)
pentetrazol  (ISO)
perfluorononanoic acid  (ISO)
permethrin  (EXP)
pirinixic acid  (ISO)
protriptyline  (ISO)
reboxetine  (ISO)
reserpine  (EXP)
resveratrol  (ISO)
SB 203580  (ISO)
selenium atom  (ISO)
serotonin  (ISO)
sodium arsenite  (ISO)
terbufos  (ISO)
tetrachloromethane  (EXP)
titanium dioxide  (EXP,ISO)
tremolite asbestos  (ISO)
tricaine  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
tryptamine  (ISO)
tyramine  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zidovudine  (ISO)
zinc sulfate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
alfentanil pharmacodynamics pathway  (ISO)
bupivacaine pharmacodynamics pathway  (ISO)
buprenorphine pharmacodynamics pathway  (ISO)
chloroprocaine pharmacodynamics pathway  (ISO)
citalopram pharmacodynamics pathway  (ISO)
cocaine pharmacodynamics pathway  (ISO)
codeine and morphine pharmacodynamics pathway  (ISO)
desipramine pharmacodynamics pathway  (ISO)
desipramine pharmacokinetics pathway  (ISO)
diphenoxylate pharmacodynamics pathway  (ISO)
escitalopram pharmacodynamics pathway  (ISO)
ethylmorphine pharmacodynamics pathway  (ISO)
fentanyl pharmacodynamics pathway  (ISO)
fluoxetine pharmacodynamics pathway  (ISO)
heroin pharmacodynamics pathway  (ISO)
hydrocodone pharmacodynamics pathway  (ISO)
hydromorphone pharmacodynamics pathway  (ISO)
imipramine pharmacodynamics pathway  (ISO)
imipramine pharmacokinetics pathway  (ISO)
levacetylmethadol pharmacodynamics pathway  (ISO)
levobupivacaine phgarmacodynamics pathway  (ISO)
levorphanol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
mepivacaine pharmacodynamics pathway  (ISO)
methadone pharmacodynamics pathway  (ISO)
nalbuphine pharmacodynamics pathway  (ISO)
naloxone pharmacodynamics pathway  (ISO)
naltrexone pharmacodynamics pathway  (ISO)
nicotine pharmacodynamics pathway  (ISO)
oxybuprocaine pharmacodynamics pathway  (ISO)
oxycodone pharmacodynamics pathway  (ISO)
oxymorphone pharmacodynamics pathway  (ISO)
pentazocine pharmacodynamics pathway  (ISO)
prilocaine pharmacodynamics pathway  (ISO)
procaine pharmacodynamics pathway  (ISO)
remifentanil pharmacodynamics pathway  (ISO)
ropivacaine pharmacodynamics pathway  (ISO)
tramadol pharmacodynamics pathway  (ISO)
venlafaxine pharmacokinetics pathway  (ISO)

References

References - curated
# Reference Title Reference Citation
1. The rat norepinephrine transporter: molecular cloning from PC12 cells and functional expression. Bruss M, etal., Brain Res Mol Brain Res 1997 Dec 15;52(2):257-62.
2. Multiple polymorphisms in genes of the adrenergic stress system confer vulnerability to alcohol abuse. Clarke TK, etal., Addict Biol. 2012 Jan;17(1):202-8. doi: 10.1111/j.1369-1600.2010.00263.x. Epub 2010 Nov 11.
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Regulated internalization and phosphorylation of the native norepinephrine transporter in response to phorbol esters. Evidence for localization in lipid rafts and lipid raft-mediated internalization. Jayanthi LD, etal., J Biol Chem. 2004 Apr 30;279(18):19315-26. Epub 2004 Feb 19.
6. Desipramine modulation of alpha-, gamma-synuclein, and the norepinephrine transporter in an animal model of depression. Jeannotte AM, etal., Neuropsychopharmacology. 2009 Mar;34(4):987-98. Epub 2008 Sep 17.
7. Dominant negative isoform of rat norepinephrine transporter produced by alternative RNA splicing. Kitayama S, etal., J Biol Chem 1999 Apr 16;274(16):10731-6.
8. Norepinephrine transporter gene (NET) polymorphism in patients with type 2 diabetes. Ksiazek P, etal., Kidney Blood Press Res. 2006;29(6):338-43. Epub 2006 Nov 23.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
12. Tyrosine residue 271 of the norepinephrine transporter is an important determinant of its pharmacology. Paczkowski FA and Bryan-Lluka LJ, Brain Res Mol Brain Res 2001 Dec 16;97(1):32-42.
13. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Immunolocalization of the cocaine- and antidepressant-sensitive l-norepinephrine transporter. Schroeter S, etal., J Comp Neurol. 2000 May 1;420(2):211-32.
18. Orthostatic intolerance and tachycardia associated with norepinephrine-transporter deficiency. Shannon JR, etal., N Engl J Med. 2000 Feb 24;342(8):541-9.
19. Systematic search for variation in the human norepinephrine transporter gene: identification of five naturally occurring missense mutations and study of association with major psychiatric disorders. Stober G, etal., Am J Med Genet 1996 Nov 22;67(6):523-32.
20. Effects of desipramine treatment on norepinephrine transporter gene expression in the cultured SK-N-BE(2)M17 cells and rat brain tissue. Zhu MY, etal., J Neurochem 2002 Jul;82(1):146-53.
Additional References at PubMed
PMID:7616203   PMID:10769386   PMID:11072103   PMID:11805341   PMID:12742186   PMID:14744474   PMID:16024787   PMID:16033425   PMID:16076648   PMID:16650837   PMID:17714497   PMID:17951370  
PMID:18331289   PMID:18418364   PMID:18509855   PMID:18565836   PMID:19283875   PMID:20170186   PMID:21498515   PMID:21763404   PMID:21968136   PMID:23160224   PMID:23979140   PMID:24075956  
PMID:24480406   PMID:26835559   PMID:27501468  


Genomics

Comparative Map Data
Slc6a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81930,183,289 - 30,228,292 (-)NCBIGRCr8
mRatBN7.21914,010,292 - 14,055,317 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1914,010,386 - 14,050,357 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1915,705,759 - 15,746,177 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01920,900,533 - 20,940,947 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01923,846,114 - 23,886,538 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01915,391,682 - 15,431,274 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1915,391,581 - 15,431,274 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01926,487,820 - 26,527,769 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41915,098,281 - 15,139,898 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11915,103,106 - 15,144,724 (-)NCBI
Celera1913,934,272 - 13,973,888 (-)NCBICelera
Cytogenetic Map19p11NCBI
SLC6A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381655,655,988 - 55,706,192 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1655,655,988 - 55,707,645 (+)EnsemblGRCh38hg38GRCh38
GRCh371655,689,900 - 55,740,104 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361654,248,057 - 54,295,201 (+)NCBINCBI36Build 36hg18NCBI36
Build 341654,248,058 - 54,293,992NCBI
Celera1640,203,750 - 40,254,437 (+)NCBICelera
Cytogenetic Map16q12.2NCBI
HuRef1641,576,866 - 41,627,544 (+)NCBIHuRef
CHM1_11657,096,804 - 57,147,472 (+)NCBICHM1_1
T2T-CHM13v2.01661,454,123 - 61,504,416 (+)NCBIT2T-CHM13v2.0
Slc6a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39893,687,100 - 93,728,295 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl893,686,707 - 93,728,295 (+)EnsemblGRCm39 Ensembl
GRCm38892,960,470 - 93,001,667 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl892,960,079 - 93,001,667 (+)EnsemblGRCm38mm10GRCm38
MGSCv37895,484,946 - 95,525,566 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36895,850,358 - 95,890,795 (+)NCBIMGSCv36mm8
Celera897,290,444 - 97,331,118 (+)NCBICelera
Cytogenetic Map8C5NCBI
cM Map844.99NCBI
Slc6a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543313,170,699 - 13,216,330 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543313,170,986 - 13,216,270 (+)NCBIChiLan1.0ChiLan1.0
SLC6A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21865,081,159 - 65,130,979 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11670,999,569 - 71,049,402 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01635,885,756 - 35,935,638 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11654,990,694 - 55,040,510 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1654,990,773 - 55,040,504 (+)Ensemblpanpan1.1panPan2
SLC6A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1260,319,304 - 60,362,532 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl260,318,999 - 60,363,120 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha256,952,622 - 56,995,852 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0260,864,357 - 60,907,590 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl260,862,947 - 60,909,112 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1257,691,521 - 57,734,761 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0258,709,413 - 58,758,960 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0259,594,439 - 59,637,674 (-)NCBIUU_Cfam_GSD_1.0
Slc6a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934951,615,383 - 51,651,300 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364757,938,519 - 7,973,538 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364757,937,920 - 7,973,563 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl629,931,664 - 29,981,372 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1629,931,650 - 29,981,636 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2627,398,949 - 27,454,595 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1541,434,004 - 41,482,568 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl541,435,387 - 41,483,643 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604734,861,536 - 34,911,611 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc6a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247571,294,064 - 1,332,856 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247571,292,811 - 1,332,868 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc6a2
290 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:212
Count of miRNA genes:138
Interacting mature miRNAs:150
Transcripts:ENSRNOT00000022285, ENSRNOT00000048470
Prediction methods:Microtar, 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
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032318023069265Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191392640130303727Rat

Markers in Region
RH141588  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21914,013,557 - 14,013,751 (+)MAPPERmRatBN7.2
Rnor_6.01915,394,848 - 15,395,041NCBIRnor6.0
Rnor_5.01926,490,986 - 26,491,179UniSTSRnor5.0
RGSC_v3.41915,101,447 - 15,101,640UniSTSRGSC3.4
Celera1913,937,427 - 13,937,620UniSTS
Cytogenetic Map19p11UniSTS


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
9 11 21 88 50 49 18 23 18 6 124 67 68 22 58 31

Sequence


Ensembl Acc Id: ENSRNOT00000022285   ⟹   ENSRNOP00000022285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1914,010,386 - 14,050,357 (-)Ensembl
Rnor_6.0 Ensembl1915,391,676 - 15,431,274 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000048470   ⟹   ENSRNOP00000044317
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1914,010,401 - 14,050,357 (-)Ensembl
Rnor_6.0 Ensembl1915,391,691 - 15,431,274 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000083684   ⟹   ENSRNOP00000075328
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1914,010,401 - 14,050,357 (-)Ensembl
Rnor_6.0 Ensembl1915,391,581 - 15,421,404 (-)Ensembl
RefSeq Acc Id: NM_031343   ⟹   NP_112633
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81930,183,289 - 30,223,511 (-)NCBI
mRatBN7.21914,010,292 - 14,050,520 (-)NCBI
Rnor_6.01915,391,682 - 15,431,274 (-)NCBI
Rnor_5.01926,487,820 - 26,527,769 (-)NCBI
RGSC_v3.41915,098,281 - 15,139,898 (-)RGD
Celera1913,934,272 - 13,973,888 (-)RGD
Sequence:
RefSeq Acc Id: XM_039098029   ⟹   XP_038953957
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81930,183,289 - 30,224,072 (-)NCBI
mRatBN7.21914,010,306 - 14,051,063 (-)NCBI
RefSeq Acc Id: XM_039098031   ⟹   XP_038953959
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81930,183,289 - 30,228,292 (-)NCBI
mRatBN7.21914,010,306 - 14,055,317 (-)NCBI
RefSeq Acc Id: XM_063278315   ⟹   XP_063134385
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81930,183,289 - 30,227,671 (-)NCBI
RefSeq Acc Id: XM_063278316   ⟹   XP_063134386
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81930,183,289 - 30,224,074 (-)NCBI
RefSeq Acc Id: NP_112633   ⟸   NM_031343
- UniProtKB: F1LQW0 (UniProtKB/TrEMBL),   A6KD51 (UniProtKB/TrEMBL),   Q63380 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000044317   ⟸   ENSRNOT00000048470
Ensembl Acc Id: ENSRNOP00000022285   ⟸   ENSRNOT00000022285
Ensembl Acc Id: ENSRNOP00000075328   ⟸   ENSRNOT00000083684
RefSeq Acc Id: XP_038953959   ⟸   XM_039098031
- Peptide Label: isoform X1
- UniProtKB: F1LQW0 (UniProtKB/TrEMBL),   A6KD51 (UniProtKB/TrEMBL),   Q63380 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038953957   ⟸   XM_039098029
- Peptide Label: isoform X1
- UniProtKB: F1LQW0 (UniProtKB/TrEMBL),   A6KD51 (UniProtKB/TrEMBL),   Q63380 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134385   ⟸   XM_063278315
- Peptide Label: isoform X1
- UniProtKB: A6KD51 (UniProtKB/TrEMBL),   F1LQW0 (UniProtKB/TrEMBL),   Q63380 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134386   ⟸   XM_063278316
- Peptide Label: isoform X1
- UniProtKB: A6KD51 (UniProtKB/TrEMBL),   F1LQW0 (UniProtKB/TrEMBL),   Q63380 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LNR9-F1-model_v2 AlphaFold F1LNR9 1-597 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:621822 AgrOrtholog
BioCyc Gene G2FUF-6403 BioCyc
Ensembl Genes ENSRNOG00000016311 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022285.8 UniProtKB/TrEMBL
  ENSRNOT00000048470 ENTREZGENE
  ENSRNOT00000048470.3 UniProtKB/TrEMBL
  ENSRNOT00000083684.2 UniProtKB/TrEMBL
InterPro Na/ntran_symport UniProtKB/TrEMBL
  Na/ntran_symport_noradrenaline UniProtKB/TrEMBL
  SNS_sf UniProtKB/TrEMBL
KEGG Report rno:83511 UniProtKB/TrEMBL
NCBI Gene 83511 ENTREZGENE
PANTHER Na/ntran_symport UniProtKB/TrEMBL
  SODIUM-DEPENDENT NORADRENALINE TRANSPORTER UniProtKB/TrEMBL
Pfam SNF UniProtKB/TrEMBL
PharmGKB SLC6A2 RGD
PhenoGen Slc6a2 PhenoGen
PRINTS NANEUSMPORT UniProtKB/TrEMBL
  NORTRANSPORT UniProtKB/TrEMBL
PROSITE NA_NEUROTRAN_SYMP_1 UniProtKB/TrEMBL
  NA_NEUROTRAN_SYMP_2 UniProtKB/TrEMBL
  NA_NEUROTRAN_SYMP_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000016311 RatGTEx
Superfamily-SCOP SSF161070 UniProtKB/TrEMBL
UniProt A0A0G2KAA8_RAT UniProtKB/TrEMBL
  A6KD51 ENTREZGENE, UniProtKB/TrEMBL
  A6KD52_RAT UniProtKB/TrEMBL
  F1LNR9_RAT UniProtKB/TrEMBL
  F1LQW0 ENTREZGENE, UniProtKB/TrEMBL
  Q63380 ENTREZGENE, UniProtKB/TrEMBL
  Q9WTR4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Slc6a2  solute carrier family 6 member 2  Slc6a2  solute carrier family 6 (neurotransmitter transporter), member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc6a2  solute carrier family 6 (neurotransmitter transporter), member 2  Slc6a2  solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Slc6a2  solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2    solute carrier family 6 (neurotransmitter transporter,noradrenalin), member 2  Name updated 1299863 APPROVED
2002-08-07 Slc6a2  solute carrier family 6 (neurotransmitter transporter,noradrenalin), member 2      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_process responsible for regulating synaptic transmission 634151
gene_transcript exists in two isoforms which differ in their COOH termini 634151