SLC6A1 (solute carrier family 6 member 1)

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Gene: SLC6A1 (solute carrier family 6 member 1) Chlorocebus sabaeus

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Symbol:

SLC6A1

Name:

solute carrier family 6 member 1

RGD ID:

18718099

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); gamma-aminobutyric acid import (ortholog); learning (ortholog); ASSOCIATED WITH alcohol dependence (ortholog); amyotrophic lateral sclerosis (ortholog); Atrioventricular Septal Defect 2 (ortholog); FOUND IN cell surface (ortholog); GABA-ergic synapse (ortholog); neuronal cell body (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

sodium- and chloride-dependent GABA transporter 1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChlSab1.1 - Green Monkey 1.1 Assembly

Position:

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	47,033,436 - 47,076,785 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	47,033,467 - 47,078,844 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	119,446,780 - 119,492,006 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

alcohol dependence (ISO)

amyotrophic lateral sclerosis (ISO)

Atrioventricular Septal Defect 2 (ISO)

autism spectrum disorder (ISO)

autosomal dominant nocturnal frontal lobe epilepsy (ISO)

benign epilepsy with centrotemporal spikes (ISO)

brain ischemia (ISO)

cerebral infarction (ISO)

Developmental Disabilities (ISO)

epilepsy (ISO)

genetic disease (ISO)

intellectual disability (ISO)

Marfanoid Mental Retardation Syndrome, Autosomal (ISO)

Myoclonic Epilepsies (ISO)

myoclonic-atonic epilepsy (ISO)

Nervous System Lead Poisoning, Adult (ISO)

Neurodevelopmental Disorders (ISO)

obesity (ISO)

Pain (ISO)

schizophrenia (ISO)

temporal lobe epilepsy (ISO)

withdrawal disorder (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

amino acid transport (IEA)

associative learning (ISO)

chloride transmembrane transport (IEA)

gamma-aminobutyric acid import (IEA,ISO)

inorganic anion import across plasma membrane (IEA)

learning (ISO)

memory (ISO)

negative regulation of synaptic transmission, GABAergic (ISO)

neurotransmitter reuptake (ISO)

neurotransmitter transport (IEA)

positive regulation of gamma-aminobutyric acid secretion (ISO)

response to calcium ion (ISO)

response to cocaine (ISO)

response to estradiol (ISO)

response to lead ion (ISO)

response to methamphetamine hydrochloride (ISO)

response to organic cyclic compound (ISO)

response to purine-containing compound (ISO)

response to sucrose (ISO)

response to toxic substance (ISO)

sodium ion import across plasma membrane (IEA)

sodium ion transmembrane transport (IEA)

synapse organization (ISO)

Cellular Component

axon (IEA)

cell surface (IEA,ISO)

GABA-ergic synapse (ISO)

membrane (IEA)

neuronal cell body (ISO)

plasma membrane (IEA,ISO)

postsynaptic membrane (ISO)

presynaptic membrane (ISO)

Molecular Function

amino acid:sodium symporter activity (ISO)

gamma-aminobutyric acid transmembrane transporter activity (ISO)

gamma-aminobutyric acid:sodium:chloride symporter activity (IEA,ISO)

identical protein binding (ISO)

metal ion binding (IEA)

protein binding (ISO)

sodium:chloride symporter activity (IEA)

symporter activity (IEA)

transmembrane transporter activity (IEA)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

SLC6A1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	47,033,436 - 47,076,785 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	47,033,467 - 47,078,844 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	119,446,780 - 119,492,006 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

SLC6A1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	10,992,748 - 11,039,247 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	10,992,186 - 11,039,247 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	11,034,434 - 11,080,933 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	11,009,453 - 11,055,935 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	3	11,009,455 - 11,055,934	NCBI
Celera	3	10,969,866 - 11,016,381 (+)	NCBI		Celera
Cytogenetic Map	3	p25.3	ENTREZGENE
HuRef	3	10,969,346 - 11,015,750 (+)	NCBI		HuRef
CHM1_1	3	10,984,449 - 11,030,960 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	3	10,987,230 - 11,033,712 (+)	NCBI		T2T-CHM13v2.0

Slc6a1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	114,259,735 - 114,294,491 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	114,259,596 - 114,294,493 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	114,282,635 - 114,317,525 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	114,282,635 - 114,317,532 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	114,232,629 - 114,267,519 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	114,248,369 - 114,283,117 (+)	NCBI		MGSCv36	mm8
Celera	6	116,104,017 - 116,138,918 (+)	NCBI		Celera
Cytogenetic Map	6	E3	NCBI
cM Map	6	53.05	NCBI

Slc6a1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	149,004,447 - 149,037,840 (+)	NCBI		GRCr8
mRatBN7.2	4	147,448,961 - 147,482,295 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	147,466,965 - 147,482,293 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	152,852,597 - 152,867,957 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	148,633,475 - 148,648,835 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	147,262,896 - 147,278,256 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	146,258,842 - 146,292,176 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	146,276,862 - 146,292,213 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	209,552,452 - 209,585,794 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	150,249,867 - 150,265,186 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	150,494,707 - 150,510,027 (+)	NCBI
Celera	4	136,018,664 - 136,033,983 (+)	NCBI		Celera
Cytogenetic Map	4	q42	NCBI

Slc6a1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955429	13,930,905 - 13,947,389 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955429	13,930,899 - 13,946,010 (+)	NCBI	ChiLan1.0	ChiLan1.0

SLC6A1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	2	10,990,452 - 11,037,034 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	10,995,212 - 11,041,794 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	10,930,455 - 10,976,968 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	11,296,014 - 11,323,624 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	11,296,023 - 11,323,624 (+)	Ensembl	panpan1.1		panPan2

SLC6A1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	7,341,071 - 7,383,197 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	7,341,072 - 7,383,287 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	7,376,561 - 7,418,616 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	20	7,371,107 - 7,413,167 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	20	7,371,116 - 7,413,202 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	20	7,087,370 - 7,129,439 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	20	7,443,566 - 7,485,634 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	20	7,415,545 - 7,457,611 (-)	NCBI		UU_Cfam_GSD_1.0

Slc6a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404942	16,512,443 - 16,550,935 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936602	2,357,607 - 2,379,061 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936602	2,359,151 - 2,397,346 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC6A1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	67,179,765 - 67,197,107 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	67,156,786 - 67,199,092 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	74,321,093 - 74,341,573 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

Slc6a1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624943	631,632 - 662,902 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624943	632,534 - 662,924 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

ectoderm	endocrine system	hemolymphoid system	mesenchyme	mesoderm	nervous system	reproductive system
76	36	19	35	35	60	20

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_007985234	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACDXN010000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCSAT00000007993 ⟹ ENSCSAP00000006148

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1 Ensembl	22	47,033,467 - 47,078,844 (+)	Ensembl

RefSeq Acc Id:

XM_007985234 ⟹ XP_007983425

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	22	47,033,436 - 47,076,785 (+)	NCBI
Vero_WHO_p1.0	NW_023666041	119,446,780 - 119,492,006 (-)	NCBI

Sequence:

show sequence

CCCGCCCTCCCCCTCCATCCCTCCGGTCTCGCTCCCCACTCCTCTCCCTTCCCCGCGTCCCTCC
GCCCGCCCTCGGAAGACCGAGACAGCGGAGAGGTTGCGGGTGAGCTGCGCTGTGCCCAGGAGCG
GAAGAGTCGGGAGCGCAGCGCAGCCCGAGCCCGAGCGGCCCCGCGTCCCGAGCGCACCGGAGCG
GCCAAGCCGCCCCGCGCAGCGCCAGTCCCGGGCAGTGCAGCCCCGGCCGCAGGCTCTCATCCAG
AGTGGCAGAAGGAGCCCTTCTGGAGCTGACCCACCCCCGACGACCATCAGGGTGCCCTTGAGCC
GCAAAACTGCTGTCCACGTGGACCGGGGCTGACATCGCACGTCCATCTGCCAGGACCCCTGCGT
CCAAATTCCGAGACATGGCGACCAACGGCAGCAAGGTGGCTGATGGGCAGATCTCCACCGAGGT
CAGCGAGGCCCCTGTGGCCAATGACAAGCCCAAAACCTTGGTGGTCAAGGTGCAGAAGAAGGCA
GCAGACCTCCCCGACCGGGACACGTGGAAGGGCCGCTTCGACTTCCTCATGTCCTGTGTGGGCT
ATGCCATCGGCCTGGGCAACGTCTGGAGGTTCCCCTATCTCTGCGGGAAAAATGGTGGGGGAGC
CTTCCTGATCCCCTACTTCCTGACGCTCATCTTTGCGGGGGTCCCACTCTTCCTGCTGGAGTGC
TCCCTGGGCCAGTACACCTCCATCGGGGGGCTGGGGGTATGGAAGCTGGCTCCTATGTTCAAGG
GCGTGGGCCTTGCGGCTGCTGTGCTGTCATTCTGGCTGAATATCTACTACATCGTCATCATCTC
CTGGGCCATCTACTACCTGTACAATTCCTTCACCACGACACTGCCGTGGAAACAGTGCGACAAC
CCCTGGAACACGGACCGCTGCTTCTCCAACTACAGCATGGTCAACACCACCAACATGACCAGCG
CTGTGGTAGAGTTCTGGGAGCGCAACATGCATCAGATGACAGATGGGCTGGATAAGCCAGGTCA
GATCCGCTGGCCACTGGCCATCACGCTGGCCATCGCCTGGATCCTTGTGTATTTCTGTATCTGG
AAGGGTGTCGGCTGGACTGGAAAGGTGGTCTACTTCTCAGCCACATACCCCTACATCATGCTGA
TCATCCTGTTCTTCCGCGGAGTGACGCTGCCCGGAGCCAAGGAGGGCATCCTCTTCTACATCAC
ACCCAACTTCCGCAAGCTGTCCGACTCTGAGGTGTGGCTGGATGCGGCGACCCAGATCTTCTTC
TCATACGGGCTGGGCCTGGGGTCCCTGATCGCTCTTGGGAGCTACAACTCTTTCCACAACAACG
TCTACAGGGACTCCATCATTGTCTGCTGCATCAATTCATGCACCAGCATGTTCGCAGGATTCGT
CATCTTCTCCATTGTGGGCTTCATGGCCCATGTCACCAAGAGGTCCATTGCTGACGTGGCGGCC
TCAGGCCCTGGGCTGGCATTCCTGGCATACCCAGAGGCGGTGACCCAGCTGCCTATCTCCCCAC
TCTGGGCCATCCTCTTCTTCTCCATGCTGCTGATGCTGGGCATTGACAGCCAGTTCTGCACTGT
GGAGGGCTTCATCACAGCCCTGGTGGATGAGTACCCCAGGCTCCTCCGCAACCGCAGAGAGCTC
TTCATTGCTGCCGTCTGCATCATCTCCTACCTGATCGGCCTCTCTAACATCACTCAGGGGGGCA
TTTACGTCTTCAAACTCTTTGATTACTACTCTGCCAGTGGCATGAGCCTGCTGTTCCTCGTGTT
CTTTGAATGTGTCTCTATTTCCTGGTTTTATGGTGTCAACCGATTCTATGACAATATCCAAGAG
ATGGTTGGATCCAGGCCCTGCATCTGGTGGAAACTCTGCTGGTCTTTCTTCACACCAATCATTG
TGGCGGGCGTGTTCATTTTCAGTGCTGTGCAGATGACGCCTCTCACCATGGGAAACTATGTTTT
CCCCAAGTGGGGCCAGGGTGTGGGCTGGCTGATGGCTCTGTCTTCCATGGTCCTCATCCCCGGG
TACATGGCCTACATGTTCCTCACCTTAAAGGGCTCCCTGAAGCAGCGCATCCAAGTCATGGTCC
AACCCAGCGAAGACATCGTTCGCCCAGAGAATGGTCCCGAGCAGCCCCAGGCCGGCAGCTCCAC
CAGCAAGGAGGCCTACATCTAGGGTGGGGGCCGCTCGCCGACCCGACACTCTCACCCCCCGACC
TGGCTGAGTGCGACCCCCACTTGATGTCTGAGGATACCTTCCATCTCAACCTACCTCGAGTGGC
GAGTCCGACACCATCACCACGCAGAAAGGGGAGGTGGGAGGACAGTTAGACCCCTAGGTGGGCC
CTGCCGTGGGCAAGGATACCCGGTGGCTTCCGGCACCTGGCAGGCTGGTGACCTTTTTAATCCA
GGCTCCATCAGCGTCCCACGATCGGCCTTGGTAACCGCCGCGGTAGATCATTTTTATTCCGCCA
GGGAGC

hide sequence

Protein Sequences


Protein RefSeqs	XP_007983425	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCSAP00000006148
	ENSCSAP00000006148.1

RefSeq Acc Id:	XP_007983425 ⟸ XM_007985234
- UniProtKB:	A0A0D9RC09 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSCSAP00000006148 ⟸ ENSCSAT00000007993

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCSAG00000009912	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCSAT00000007993.1	UniProtKB/TrEMBL
InterPro	Na/ntran_symport	UniProtKB/TrEMBL
	Na/ntran_symport_GABA_GAT1	UniProtKB/TrEMBL
	SNS_sf	UniProtKB/TrEMBL
KEGG Report	csab:103228010	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	A0A0D9RC09	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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