Slc6a1 (solute carrier family 6 member 1) - Rat Genome Database

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Gene: Slc6a1 (solute carrier family 6 member 1) Chinchilla lanigera
Analyze
Symbol: Slc6a1
Name: solute carrier family 6 member 1
RGD ID: 8840792
Description: ENCODES a protein that exhibits amino acid:sodium symporter activity (ortholog); gamma-aminobutyric acid transmembrane transporter activity (ortholog); gamma-aminobutyric acid:sodium:chloride symporter activity (ortholog); INVOLVED IN associative learning (ortholog); chloride transmembrane transport (ortholog); gamma-aminobutyric acid import (ortholog); ASSOCIATED WITH alcohol dependence (ortholog); amyotrophic lateral sclerosis (ortholog); Atrioventricular Septal Defect 2 (ortholog); FOUND IN axon (ortholog); cell surface (ortholog); GABA-ergic synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sodium- and chloride-dependent GABA transporter 1; solute carrier family 6 (neurotransmitter transporter), member 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542913,930,905 - 13,947,389 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542913,930,899 - 13,946,010 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Slc6a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542913,930,905 - 13,947,389 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542913,930,899 - 13,946,010 (+)NCBIChiLan1.0ChiLan1.0
SLC6A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38310,992,748 - 11,039,247 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl310,992,186 - 11,039,247 (+)EnsemblGRCh38hg38GRCh38
GRCh37311,034,434 - 11,080,933 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36311,009,453 - 11,055,935 (+)NCBINCBI36Build 36hg18NCBI36
Build 34311,009,455 - 11,055,934NCBI
Celera310,969,866 - 11,016,381 (+)NCBICelera
Cytogenetic Map3p25.3ENTREZGENE
HuRef310,969,346 - 11,015,750 (+)NCBIHuRef
CHM1_1310,984,449 - 11,030,960 (+)NCBICHM1_1
T2T-CHM13v2.0310,987,230 - 11,033,712 (+)NCBIT2T-CHM13v2.0
Slc6a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396114,259,735 - 114,294,491 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6114,259,596 - 114,294,493 (+)EnsemblGRCm39 Ensembl
GRCm386114,282,635 - 114,317,525 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6114,282,635 - 114,317,532 (+)EnsemblGRCm38mm10GRCm38
MGSCv376114,232,629 - 114,267,519 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366114,248,369 - 114,283,117 (+)NCBIMGSCv36mm8
Celera6116,104,017 - 116,138,918 (+)NCBICelera
Cytogenetic Map6E3NCBI
cM Map653.05NCBI
Slc6a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84149,004,447 - 149,037,840 (+)NCBIGRCr8
mRatBN7.24147,448,961 - 147,482,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4147,466,965 - 147,482,293 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4152,852,597 - 152,867,957 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04148,633,475 - 148,648,835 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04147,262,896 - 147,278,256 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04146,258,842 - 146,292,176 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4146,276,862 - 146,292,213 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04209,552,452 - 209,585,794 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44150,249,867 - 150,265,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14150,494,707 - 150,510,027 (+)NCBI
Celera4136,018,664 - 136,033,983 (+)NCBICelera
Cytogenetic Map4q42NCBI
SLC6A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2210,990,452 - 11,037,034 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1310,995,212 - 11,041,794 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0310,930,455 - 10,976,968 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1311,296,014 - 11,323,624 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl311,296,023 - 11,323,624 (+)Ensemblpanpan1.1panPan2
SLC6A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1207,341,071 - 7,383,197 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl207,341,072 - 7,383,287 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha207,376,561 - 7,418,616 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0207,371,107 - 7,413,167 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl207,371,116 - 7,413,202 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1207,087,370 - 7,129,439 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0207,443,566 - 7,485,634 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0207,415,545 - 7,457,611 (-)NCBIUU_Cfam_GSD_1.0
Slc6a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494216,512,443 - 16,550,935 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366022,357,607 - 2,379,061 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366022,359,151 - 2,397,346 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1367,179,765 - 67,197,107 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11367,156,786 - 67,199,092 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21374,321,093 - 74,341,573 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12247,033,436 - 47,076,785 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2247,033,467 - 47,078,844 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041119,446,780 - 119,492,006 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc6a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624943631,632 - 662,902 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624943632,534 - 662,924 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000007115   ⟹   ENSCLAP00000007003
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542913,930,905 - 13,947,389 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000007116   ⟹   ENSCLAP00000007004
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542913,930,972 - 13,947,389 (+)Ensembl
RefSeq Acc Id: XM_005387004   ⟹   XP_005387061
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542913,930,899 - 13,946,010 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005387005   ⟹   XP_005387062
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542913,930,972 - 13,946,010 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005387061 (Get FASTA)   NCBI Sequence Viewer  
  XP_005387062 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000007003
  ENSCLAP00000007003.1
  ENSCLAP00000007004
  ENSCLAP00000007004.1
Reference Protein Sequences
RefSeq Acc Id: XP_005387061   ⟸   XM_005387004
- UniProtKB: A0A8C2UWW7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005387062   ⟸   XM_005387005
- UniProtKB: A0A8C2UWW7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000007004   ⟸   ENSCLAT00000007116
RefSeq Acc Id: ENSCLAP00000007003   ⟸   ENSCLAT00000007115


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000004934 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000007115 ENTREZGENE
  ENSCLAT00000007115.1 UniProtKB/TrEMBL
  ENSCLAT00000007116 ENTREZGENE
  ENSCLAT00000007116.1 UniProtKB/TrEMBL
InterPro Na/ntran_symport UniProtKB/TrEMBL
  Na/ntran_symport_GABA_GAT1 UniProtKB/TrEMBL
  SNS_sf UniProtKB/TrEMBL
NCBI Gene Slc6a1 ENTREZGENE
PANTHER PTHR11616 UniProtKB/TrEMBL
  SODIUM- AND CHLORIDE-DEPENDENT GABA TRANSPORTER 1 UniProtKB/TrEMBL
Pfam SNF UniProtKB/TrEMBL
PRINTS GAT1TRNSPORT 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 A0A8C2UWW7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Slc6a1  solute carrier family 6 member 1    solute carrier family 6 (neurotransmitter transporter), member 1  Symbol and/or name change 5135510 APPROVED