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

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Gene: Slc6a2 (solute carrier family 6 member 2) Rattus norvegicus
Analyze
Symbol: Slc6a2
Name: solute carrier family 6 member 2
RGD ID: 621822
Description: Exhibits alpha-tubulin binding activity; beta-tubulin binding activity; and norepinephrine:sodium symporter activity. Involved in norepinephrine transport and response to drug. Localizes to several cellular components, including cell surface; membrane raft; and neuron projection. Biomarker of mental depression. Human ortholog(s) of this gene implicated in 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
Also 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 Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21914,010,292 - 14,055,317 (-)NCBI
Rnor_6.0 Ensembl1915,391,581 - 15,431,274 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01915,391,682 - 15,431,274 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01926,487,820 - 26,527,769 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41915,098,281 - 15,139,898 (-)NCBIRGSC3.4rn4RGSC3.4
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)
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-Tetrachlorodibenzofuran  (EXP)
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)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
bupivacaine  (ISO)
buta-1,3-diene  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
chloroprene  (ISO)
chlorpyrifos  (EXP)
clozapine  (EXP)
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)
genistein  (ISO)
hydralazine  (ISO)
hydrazine  (ISO)
hydrogen sulfide  (ISO)
kainic acid  (ISO)
ketamine  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
lidocaine  (ISO)
maneb  (ISO)
methamphetamine  (ISO)
monensin A  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
nickel atom  (EXP,ISO)
nisoxetine  (ISO)
nortriptyline  (ISO)
octopamine  (ISO)
paraquat  (ISO)
parathion  (ISO)
PCB138  (ISO)
pentetrazol  (ISO)
pirinixic acid  (ISO)
protriptyline  (ISO)
reboxetine  (ISO)
reserpine  (EXP)
SB 203580  (ISO)
selenium atom  (ISO)
serotonin  (ISO)
terbufos  (ISO)
tetrachloromethane  (EXP)
titanium dioxide  (EXP,ISO)
tremolite asbestos  (ISO)
tricaine  (ISO)
triclosan  (ISO)
tryptamine  (ISO)
tyramine  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zidovudine  (ISO)
zinc sulfate  (ISO)

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

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
mRatBN7.21914,010,292 - 14,055,317 (-)NCBI
Rnor_6.0 Ensembl1915,391,581 - 15,431,274 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01915,391,682 - 15,431,274 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01926,487,820 - 26,527,769 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41915,098,281 - 15,139,898 (-)NCBIRGSC3.4rn4RGSC3.4
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
GRCh38.p13 Ensembl1655,655,604 - 55,706,192 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1655,655,988 - 55,707,645 (+)EnsemblGRCh38hg38GRCh38
GRCh381655,655,928 - 55,706,192 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371655,689,900 - 55,740,104 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361654,248,057 - 54,295,201 (+)NCBINCBI36hg18NCBI36
Build 341654,248,058 - 54,293,992NCBI
Celera1640,203,750 - 40,254,437 (+)NCBI
Cytogenetic Map16q12.2NCBI
HuRef1641,576,866 - 41,627,544 (+)NCBIHuRef
CHM1_11657,096,804 - 57,147,472 (+)NCBICHM1_1
Slc6a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39893,687,100 - 93,728,295 (+)NCBIGRCm39mm39
GRCm39 Ensembl893,686,707 - 93,728,295 (+)Ensembl
GRCm38892,960,470 - 93,001,667 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl892,960,079 - 93,001,667 (+)EnsemblGRCm38mm10GRCm38
MGSCv37895,484,946 - 95,525,566 (+)NCBIGRCm37mm9NCBIm37
MGSCv36895,850,358 - 95,890,795 (+)NCBImm8
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
PanPan1.11654,990,694 - 55,040,510 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1654,990,773 - 55,040,504 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01635,885,756 - 35,935,638 (+)NCBIMhudiblu_PPA_v0panPan3
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 (-)NCBI
ROS_Cfam_1.0260,864,357 - 60,907,590 (-)NCBI
UMICH_Zoey_3.1257,691,521 - 57,734,761 (-)NCBI
UNSW_CanFamBas_1.0258,709,413 - 58,758,960 (-)NCBI
UU_Cfam_GSD_1.0259,594,439 - 59,637,674 (-)NCBI
Slc6a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934951,615,383 - 51,651,300 (-)NCBI
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 - 29,980,823 (-)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 - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1541,434,004 - 41,482,568 (+)NCBI
ChlSab1.1 Ensembl541,435,387 - 41,483,643 (+)Ensembl
Slc6a2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247571,292,811 - 1,332,868 (-)NCBI

Position Markers
RH141588  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21914,013,557 - 14,013,751 (+)MAPPER
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


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124933090Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127635288Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19129558305Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19129558305Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19132379055Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19138221845Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19138221845Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19138221845Rat
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)19138221845Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19104464846044648Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19195770746957707Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19243296347217667Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)19370183548701835Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)19370183548701835Rat
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)19500757143907843Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19807254547318201Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191073992926201726Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191130392747879277Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191529452433991703Rat

miRNA Target Status

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.


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 1 2 1 1
Low 7 4 5 29 14 10 4
Below cutoff 3 16 20 12 18 12 4 6 20 16 24 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022285   ⟹   ENSRNOP00000022285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1915,391,676 - 15,431,274 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000048470   ⟹   ENSRNOP00000044317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1915,391,691 - 15,431,274 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083684   ⟹   ENSRNOP00000075328
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
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
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21914,010,306 - 14,051,063 (-)NCBI
RefSeq Acc Id: XM_039098030   ⟹   XP_038953958
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21914,010,306 - 14,055,312 (-)NCBI
RefSeq Acc Id: XM_039098031   ⟹   XP_038953959
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21914,010,306 - 14,055,317 (-)NCBI
RefSeq Acc Id: XM_039098032   ⟹   XP_038953960
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21914,010,306 - 14,055,285 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_112633   ⟸   NM_031343
- Sequence:
RefSeq Acc Id: ENSRNOP00000044317   ⟸   ENSRNOT00000048470
RefSeq Acc Id: ENSRNOP00000022285   ⟸   ENSRNOT00000022285
RefSeq Acc Id: ENSRNOP00000075328   ⟸   ENSRNOT00000083684
RefSeq Acc Id: XP_038953959   ⟸   XM_039098031
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953958   ⟸   XM_039098030
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953960   ⟸   XM_039098032
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953957   ⟸   XM_039098029
- Peptide Label: isoform X1

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621822 AgrOrtholog
Ensembl Genes ENSRNOG00000016311 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022285 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000044317 UniProtKB/TrEMBL
  ENSRNOP00000075328 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022285 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000048470 UniProtKB/TrEMBL
  ENSRNOT00000083684 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
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
Superfamily-SCOP SSF161070 UniProtKB/TrEMBL
UniProt A0A0G2KAA8_RAT UniProtKB/TrEMBL
  F1LNR9_RAT UniProtKB/TrEMBL
  F1LQW0_RAT 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