Slc6a4 (solute carrier family 6 member 4) - Rat Genome Database

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Gene: Slc6a4 (solute carrier family 6 member 4) Heterocephalus glaber
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Symbol: Slc6a4
Name: solute carrier family 6 member 4
RGD ID: 18925358
Description: ENCODES a protein that exhibits actin filament binding (ortholog); cocaine binding (ortholog); identical protein binding (ortholog); INVOLVED IN behavioral response to cocaine (ortholog); brain morphogenesis (ortholog); cellular response to cGMP (ortholog); PARTICIPATES IN alfentanil pharmacodynamics pathway; bupivacaine pharmacodynamics pathway; buprenorphine pharmacodynamics pathway; ASSOCIATED WITH AIDS Dementia Complex (ortholog); alcohol dependence (ortholog); alcohol use disorder (ortholog); FOUND IN endomembrane system (ortholog); membrane raft (ortholog); postsynaptic membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sodium-dependent serotonin transporter; solute carrier family 6 (neurotransmitter transporter, serotonin), member 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247862,672,552 - 2,710,914 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247862,673,285 - 2,711,432 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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

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)
citalopram pharmacokinetics 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)
fluoxetine pharmacokinetics 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)
pathogenic Escherichia coli infection 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:22301074   PMID:30032202  


Genomics

Comparative Map Data
Slc6a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247862,672,552 - 2,710,914 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247862,673,285 - 2,711,432 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
SLC6A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381730,194,319 - 30,235,697 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1730,194,319 - 30,236,002 (-)EnsemblGRCh38hg38GRCh38
GRCh371728,521,337 - 28,562,715 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361725,549,032 - 25,586,841 (-)NCBINCBI36Build 36hg18NCBI36
Build 341725,549,031 - 25,586,831NCBI
Celera1725,385,103 - 25,424,627 (-)NCBICelera
Cytogenetic Map17q11.2NCBI
HuRef1724,731,684 - 24,773,327 (-)NCBIHuRef
CHM1_11728,583,810 - 28,625,471 (-)NCBICHM1_1
T2T-CHM13v2.01731,138,872 - 31,180,231 (-)NCBIT2T-CHM13v2.0
Slc6a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391176,889,423 - 76,923,169 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1176,889,429 - 76,923,166 (+)EnsemblGRCm39 Ensembl
GRCm381176,998,597 - 77,032,343 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1176,998,603 - 77,032,340 (+)EnsemblGRCm38mm10GRCm38
MGSCv371176,812,099 - 76,845,845 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361176,814,792 - 76,848,536 (+)NCBIMGSCv36mm8
Celera1184,497,023 - 84,530,633 (+)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.18NCBI
Slc6a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81062,322,688 - 62,357,060 (+)NCBIGRCr8
mRatBN7.21061,824,208 - 61,858,924 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1061,826,123 - 61,858,384 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1066,483,857 - 66,505,046 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01065,989,335 - 66,010,524 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01061,459,175 - 61,480,332 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01063,153,656 - 63,188,377 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1063,153,651 - 63,176,463 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01062,851,326 - 62,872,481 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41067,134,790 - 67,155,891 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11067,148,412 - 67,197,988 (-)NCBI
Celera1060,845,942 - 60,866,725 (+)NCBICelera
Cytogenetic Map10q24NCBI
Slc6a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554813,088,416 - 3,125,711 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554813,088,440 - 3,122,421 (+)NCBIChiLan1.0ChiLan1.0
SLC6A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21934,227,536 - 34,255,470 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11736,108,094 - 36,136,018 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01726,546,177 - 26,572,301 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11727,050,900 - 27,089,444 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1727,050,900 - 27,092,882 (+)Ensemblpanpan1.1panPan2
SLC6A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1944,224,026 - 44,259,655 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl944,224,229 - 44,259,736 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha943,375,681 - 43,398,433 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0945,040,878 - 45,077,650 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl945,042,211 - 45,077,764 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1943,823,112 - 43,845,857 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0944,109,908 - 44,132,663 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0944,194,421 - 44,217,174 (-)NCBIUU_Cfam_GSD_1.0
Slc6a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560243,327,307 - 43,361,581 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365386,205,251 - 6,239,083 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365386,205,268 - 6,239,062 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1246,285,997 - 46,314,378 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11246,285,995 - 46,328,377 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21248,106,444 - 48,135,338 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11623,929,196 - 23,969,665 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1623,927,311 - 23,955,616 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660756,110,560 - 6,136,546 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000023678   ⟹   ENSHGLP00000023461
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247862,672,552 - 2,710,914 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000023679   ⟹   ENSHGLP00000023462
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247862,672,552 - 2,700,311 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000023680   ⟹   ENSHGLP00000023463
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247862,672,552 - 2,698,079 (-)Ensembl
RefSeq Acc Id: XM_004857080   ⟹   XP_004857137
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247862,673,285 - 2,698,015 (-)NCBI
RefSeq Acc Id: XM_004857081   ⟹   XP_004857138
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247862,673,285 - 2,698,033 (-)NCBI
RefSeq Acc Id: XM_004857082   ⟹   XP_004857139
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247862,673,285 - 2,711,432 (-)NCBI
RefSeq Acc Id: XM_021238292   ⟹   XP_021093951
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247862,673,285 - 2,710,009 (-)NCBI
RefSeq Acc Id: XP_004857139   ⟸   XM_004857082
- Peptide Label: isoform X2
- UniProtKB: A0A0N8EUJ0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021093951   ⟸   XM_021238292
- Peptide Label: isoform X1
RefSeq Acc Id: XP_004857138   ⟸   XM_004857081
- Peptide Label: isoform X2
- UniProtKB: A0A0N8EUJ0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004857137   ⟸   XM_004857080
- Peptide Label: isoform X2
- UniProtKB: A0A0N8EUJ0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000023461   ⟸   ENSHGLT00000023678
Ensembl Acc Id: ENSHGLP00000023463   ⟸   ENSHGLT00000023680
Ensembl Acc Id: ENSHGLP00000023462   ⟸   ENSHGLT00000023679


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000016732 Ensembl, ENTREZGENE
  ENSHGLG00100018567 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000023678 ENTREZGENE
  ENSHGLT00000023679 ENTREZGENE
  ENSHGLT00000023680 ENTREZGENE
  ENSHGLT00100025563 UniProtKB/TrEMBL
InterPro Na/ntran_symport UniProtKB/TrEMBL
  Na/ntran_symport_serotonin_N UniProtKB/TrEMBL
  SNS_sf UniProtKB/TrEMBL
KEGG Report hgl:101705584 UniProtKB/TrEMBL
NCBI Gene Slc6a4 ENTREZGENE
PANTHER PTHR11616 UniProtKB/TrEMBL
  SODIUM-DEPENDENT SEROTONIN TRANSPORTER UniProtKB/TrEMBL
Pfam 5HT_transport_N UniProtKB/TrEMBL
  SNF UniProtKB/TrEMBL
PRINTS 5HTTRANSPORT UniProtKB/TrEMBL
  NANEUSMPORT 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 A0A0N8EUJ0 ENTREZGENE, UniProtKB/TrEMBL