Slc6a11 MGI Mouse Gene Detail - MGI:95630 - solute carrier family 6 (neurotransmitter transporter, GABA), member 11

Symbol

Slc6a11
Name

solute carrier family 6 (neurotransmitter transporter, GABA), member 11
Synonyms

D930045G19Rik, E130202I16Rik, Gabt4, Gat3, GAT4

Feature Type

protein coding gene
IDs

MGI:95630
NCBI Gene: 243616
Alliance

gene page
Transcription Start Sites

8 TSS

Sequence Map

Chr6:114108202-114226847 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 6, 52.98 cM
Mapping Data

7 experiments

SNPs within 2kb

3814 from dbSNP Build 142
Strain Annotations

18
PCR

1
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_95630	protein coding gene	Chr6:114108202-114226913 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0031139	protein coding gene	Chr6:116693515-116815948 (+)
A/J	MGP_AJ_G0031108	protein coding gene	Chr6:112216320-112335021 (+)
AKR/J	MGP_AKRJ_G0031039	protein coding gene	Chr6:115231124-115350797 (+)
BALB/cJ	MGP_BALBcJ_G0031119	protein coding gene	Chr6:112161802-112280324 (+)
C3H/HeJ	MGP_C3HHeJ_G0030589	protein coding gene	Chr6:68945626-69065978 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0031578	protein coding gene	Chr6:119693018-119813697 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028742	protein coding gene	Chr6:109240155-109359793 (+)
CAST/EiJ	MGP_CASTEiJ_G0030226	protein coding gene	Chr6:115696928-115824898 (+)
CBA/J	MGP_CBAJ_G0030805	protein coding gene	Chr6:124444867-124564815 (+)
DBA/2J	MGP_DBA2J_G0030958	protein coding gene	Chr6:111292869-111410618 (+)
FVB/NJ	MGP_FVBNJ_G0030912	protein coding gene	Chr6:110305065-110424929 (+)
LP/J	MGP_LPJ_G0031038	protein coding gene	Chr6:116710036-116829173 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030946	protein coding gene	Chr6:128645687-128766903 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0031605	protein coding gene	Chr6:115258184-115377026 (+)
PWK/PhJ	MGP_PWKPhJ_G0029942	protein coding gene	Chr6:110262946-110382644 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0029770	protein coding gene	Chr6:114067168-114192883 (+)
WSB/EiJ	MGP_WSBEiJ_G0030310	protein coding gene	Chr6:115626597-115750579 (+)

Human Ortholog

SLC6A11, solute carrier family 6 member 11

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SLC6A11, solute carrier family 6 member 11
Synonyms

GAT-3, GAT3, GAT4
Links

HGNC:11044

NCBI Gene ID: 6538

neXtProt AC: NX_P48066

UniProt: P48066
Chr Location

3p25.3; chr3:10816201-10940714 (+) GRCh38

MGI Vertebrate Homology

Slc6a11 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: SLC6A11
Gene Tree

Slc6a11

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Phenotype Summary

2 phenotypes from 1 allele in 1 genetic background
11 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

7
Endonuclease-mediated

2
Spontaneous

1
Targeted

4
Genomic Mutations

1 involving Slc6a11
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

40 strains or lines available
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Mice homozygous for a targeted mutation display postnatal lethality. Mice heterozygous for a targeted mutation display resistance to pharmacologically induced seizures.

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All GO Annotations

35
GO References

8

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

1001
Tissues

121
cDNA Data

10
Literature Summary

10

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

ZFIN slc6a11a, slc6a11b

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All Sequences

33
RefSeq

2
UniProt

2
CCDS

CCDS39597.1

Ensembl

ENSMUSG00000030307 (Evidence)
NCBI Gene

243616

			Length	Strain/Species	Flank
genomic	243616	NCBI Gene Model \| MGI Sequence Detail	118646	C57BL/6J	± kb
transcript	NM_172890	RefSeq \| MGI Sequence Detail	4066	ZRU/MplStud
polypeptide	P31650	UniProt \| EBI \| MGI Sequence Detail	627	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000015177 sodium- and chloride-dependent GABA transporter 3

(term hierarchy)
InterPro Domains

IPR000175 Sodium:neurotransmitter symporter

IPR002982 Sodium:neurotransmitter symporter, GABA, GAT-3

IPR037272 Sodium:neurotransmitter symporter superfamily
GlyGen

P31650 4 sites, 1 O-linked glycan (1 site)

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All nucleic 27

Genomic 10

cDNA 12

Primer pair 5

Microarray probesets 2

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MGD-MRK-9950, MGI:1925977, MGI:2443874

Summaries

All 54

Developmental Gene Expression 10

Gene Ontology 8

Phenotypes 11
Earliest

J:3704 Liu QR, et al., Molecular characterization of four pharmacologically distinct gamma-aminobutyric acid transporters in mouse brain [corrected] [published erratum appers in J Biol Chem 1993 Apr 25;268(12):9156]. J Biol Chem. 1993 Jan 25;268(3):2106-12
Latest

J:326541 Cyagen Biosciences Inc., Cyagen Biosciences Website. 2022;

TSS for Slc6a11:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr58261	Chr6:114108190-114108207 (+)	-3 bp
Tssr58262	Chr6:114108340-114108399 (+)	168 bp
Tssr58263	Chr6:114225006-114225019 (+)	116,811 bp
Tssr58264	Chr6:114225052-114225079 (+)	116,864 bp
Tssr58265	Chr6:114225122-114225135 (+)	116,927 bp
Tssr58266	Chr6:114225306-114225322 (+)	117,112 bp
Tssr58267	Chr6:114225337-114225363 (+)	117,148 bp
Tssr1965	Chr6:114226640-114226652 (+)	118,444 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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