Slc6a9 (solute carrier family 6 (neurotransmitter transporter, glycine), member 9) - Rat Genome Database

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Gene: Slc6a9 (solute carrier family 6 (neurotransmitter transporter, glycine), member 9) Mus musculus
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Symbol: Slc6a9
Name: solute carrier family 6 (neurotransmitter transporter, glycine), member 9
RGD ID: 732097
MGI Page MGI
Description: Enables glycine:sodium symporter activity. Involved in several processes, including glycine import across plasma membrane; positive regulation of biosynthetic process; and regulation of glycinergic synaptic transmission. Acts upstream of or within glycine secretion, neurotransmission. Located in plasma membrane. Is expressed in several structures, including central nervous system; eye; genitourinary system; gut; and liver and biliary system. Used to study glycine encephalopathy. Orthologous to human SLC6A9 (solute carrier family 6 member 9).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: glycine transporter 1; Glyt; Glyt-; Glyt-1; Glyt1; sodium- and chloride-dependent glycine transporter 1; solute carrier family 6 member 9
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394117,692,240 - 117,726,502 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4117,691,703 - 117,732,395 (+)EnsemblGRCm39 Ensembl
GRCm384117,835,258 - 117,869,305 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4117,834,506 - 117,875,198 (+)EnsemblGRCm38mm10GRCm38
MGSCv374117,507,863 - 117,541,910 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364117,333,190 - 117,367,237 (+)NCBIMGSCv36mm8
Celera4116,550,328 - 116,584,414 (+)NCBICelera
Cytogenetic Map4D1NCBI
cM Map453.62NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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Original Reference(s)
Slc6a9MouseCharcot-Marie-Tooth disease dominant intermediate C  ISOSLC6A9 (Homo sapiens)8554872ClinVar Annotator: match by term: Charcot-Marie-Tooth disease dominant intermediate CClinVarPMID:28492532
Slc6a9Mousedevelopmental and epileptic encephalopathy  ISOSLC6A9 (Homo sapiens)8554872ClinVar Annotator: match by term: Developmental and epileptic encephalopathyClinVarPMID:23252400 more ...
Slc6a9Mouseearly infantile epileptic encephalopathy  ISOSLC6A9 (Homo sapiens)8554872ClinVar Annotator: match by term: Early infantile epileptic encephalopathyClinVarPMID:23252400 more ...
Slc6a9Mousegenetic disease  ISOSLC6A9 (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVarPMID:25741868 and PMID:28492532
Slc6a9MouseGLYCINE ENCEPHALOPATHY WITH NORMAL SERUM GLYCINE  ISOSLC6A9 (Homo sapiens)8554872ClinVar Annotator: match by term: Glycine encephalopathy with normal serum glycineClinVarPMID:16199547 more ...
Slc6a9Mouseprostate cancer  ISOSLC6A9 (Homo sapiens)8554872ClinVar Annotator: match by term: Malignant tumor of prostateClinVarPMID:23265383 and PMID:28492532
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Original Reference(s)
Slc6a9Mouseamphetamine abuse  ISOSLC6A9 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:17582620
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Slc6a9Mouseglycine encephalopathy  IAGP 13592920OMIM:605899MouseDO 
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Slc6a9MouseGLYCINE ENCEPHALOPATHY WITH NORMAL SERUM GLYCINE  ISOSLC6A9 (Homo sapiens)7240710 OMIM 

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Slc6a9Mouse(+)-schisandrin B multiple interactionsISOSlc6a9 (Rattus norvegicus)6480464schizandrin B inhibits the reaction [Carbon Tetrachloride results in increased expression of SLC6A9 mRNA]CTDPMID:31150632
Slc6a9Mouse(1->4)-beta-D-glucan multiple interactionsEXP 6480464[perfluorooctane sulfonic acid co-treated with Cellulose] results in increased expression of SLC6A9 mRNACTDPMID:36331819
Slc6a9Mouse1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane affects expressionISOSlc6a9 (Rattus norvegicus)64804642 more ...CTDPMID:19414516
Slc6a9Mouse1,2-dimethylhydrazine multiple interactionsEXP 6480464[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in decreased expression of SLC6A9 mRNACTDPMID:22206623
Slc6a9Mouse17alpha-ethynylestradiol increases expressionEXP 6480464Ethinyl Estradiol results in increased expression of SLC6A9 mRNACTDPMID:17942748
Slc6a9Mouse17alpha-ethynylestradiol multiple interactionsEXP 6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of SLC6A9 mRNACTDPMID:17942748
Slc6a9Mouse17beta-estradiol multiple interactionsISOSLC6A9 (Homo sapiens)6480464[Estradiol co-treated with TGFB1 protein] results in decreased expression of SLC6A9 mRNACTDPMID:30165855
Slc6a9Mouse17beta-estradiol decreases expressionEXP 6480464Estradiol results in decreased expression of SLC6A9 mRNACTDPMID:39298647
Slc6a9Mouse17beta-estradiol increases expressionISOSlc6a9 (Rattus norvegicus)6480464Estradiol results in increased expression of SLC6A9 mRNACTDPMID:32145629
Slc6a9Mouse2,2',4,4'-Tetrabromodiphenyl ether increases expressionISOSlc6a9 (Rattus norvegicus)64804642 more ...CTDPMID:27291303
Slc6a9Mouse2,3,7,8-tetrachlorodibenzodioxine multiple interactionsEXP 6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of SLC6A9 mRNACTDPMID:17942748
Slc6a9Mouse2,3,7,8-tetrachlorodibenzodioxine increases expressionISOSlc6a9 (Rattus norvegicus)6480464Tetrachlorodibenzodioxin results in increased expression of SLC6A9 mRNACTDPMID:33387578
Slc6a9Mouse2,3,7,8-tetrachlorodibenzodioxine affects expressionEXP 6480464Tetrachlorodibenzodioxin affects the expression of SLC6A9 mRNACTDPMID:21570461 and PMID:24680724
Slc6a9Mouse2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOSlc6a9 (Rattus norvegicus)6480464Tetrachlorodibenzodioxin results in decreased expression of SLC6A9 mRNACTDPMID:21215274
Slc6a9Mouse2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of SLC6A9 mRNACTDPMID:19933214
Slc6a9Mouse2,3,7,8-Tetrachlorodibenzofuran decreases expressionISOSlc6a9 (Rattus norvegicus)64804642 more ...CTDPMID:32109520
Slc6a9Mouse2-butoxyethanol increases expressionEXP 6480464n-butoxyethanol results in increased expression of SLC6A9 mRNACTDPMID:19812364
Slc6a9Mouse3,3',4,4'-tetrachlorobiphenyl multiple interactionsEXP 64804643 more ...CTDPMID:19467301
Slc6a9Mouse4,4'-sulfonyldiphenol increases methylationEXP 6480464bisphenol S results in increased methylation of SLC6A9 exonCTDPMID:33297965
Slc6a9Mouse4,4'-sulfonyldiphenol multiple interactionsISOSlc6a9 (Rattus norvegicus)6480464[bisphenol A co-treated with bisphenol F co-treated with bisphenol S] results in increased expression of SLC6A9 mRNACTDPMID:36041667

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Biological Process
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Original Reference(s)
Slc6a9Mouseglycine import across plasma membrane involved_inIBAPANTHER:PTN000907238 more ...2290270 GO_CentralGO_REF:0000033
Slc6a9Mouseglycine import across plasma membrane involved_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mouseglycine import across plasma membrane involved_inIMP 2290270 PMID:28495915ARUK-UCLPMID:28495915
Slc6a9Mouseglycine secretion, neurotransmission acts_upstream_of_or_withinIMP 2290270 PMID:22988142MGIPMID:22988142
Slc6a9Mouseglycine transport involved_inIMP 2290270 PMID:14622582 and PMID:15159536UniProtPMID:14622582 and PMID:15159536
Slc6a9Mouseglycine transport acts_upstream_of_or_withinIDA 2290270 PMID:1618338MGIPMID:1618338
Slc6a9Mouseneurotransmitter uptake involved_inIDA 2290270 PMID:1618338SynGOPMID:1618338
Slc6a9Mouseneurotransmitter uptake involved_inIMP 2290270 PMID:1618338SynGOPMID:1618338
Slc6a9Mousepositive regulation of heme biosynthetic process involved_inIMP 2290270 PMID:28495915ARUK-UCLPMID:28495915
Slc6a9Mousepositive regulation of hemoglobin biosynthetic process involved_inIMP 2290270 PMID:28495915ARUK-UCLPMID:28495915
Slc6a9Mouseregulation of synaptic transmission, glycinergic involved_inIMP 2290270 PMID:14622582UniProtPMID:14622582
Slc6a9Mousesodium ion transmembrane transport involved_inIEAGO:00052832290270 GOCGO_REF:0000108
Slc6a9Mousesodium ion transmembrane transport involved_inIBAPANTHER:PTN000177662 and UniProtKB:P305312290270 GO_CentralGO_REF:0000033
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Cellular Component
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Original Reference(s)
Slc6a9Mouseapical plasma membrane located_inISOUniProtKB:P480672290270 GO_CentralGO_REF:0000119
Slc6a9Mouseasymmetric synapse is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mousebasal plasma membrane located_inISOUniProtKB:P480672290270 GO_CentralGO_REF:0000119
Slc6a9Mousebasolateral plasma membrane located_inISOUniProtKB:P480672290270 GO_CentralGO_REF:0000119
Slc6a9Mousedense core granule located_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mouseendosome located_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mousehippocampal mossy fiber to CA3 synapse is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mouselateral plasma membrane located_inISOUniProtKB:P480672290270 GO_CentralGO_REF:0000119
Slc6a9Mousemembrane located_inICGO:00151872290270 PMID:1618338MGIPMID:1618338
Slc6a9Mouseparallel fiber to Purkinje cell synapse is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mouseplasma membrane is_active_inIBAPANTHER:PTN000177662 more ...2290270 GO_CentralGO_REF:0000033
Slc6a9Mouseplasma membrane located_inIDA 2290270 PMID:17724084MGIPMID:17724084
Slc6a9Mouseplasma membrane located_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mousepostsynaptic density is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mousepostsynaptic membrane is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mousepresynapse located_inIEAGO:00615372290270 GOCGO_REF:0000108
Slc6a9Mousepresynaptic membrane is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
Slc6a9Mousesynaptic vesicle membrane is_active_inISOSlc6a9 (Rattus norvegicus)2290270 GO_CentralGO_REF:0000096
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Molecular Function
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Slc6a9Mouseabnormal active avoidance behavior  IAGP 5509061 MGIPMID:16554468
Slc6a9Mouseabnormal breathing pattern  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseabnormal conditioned taste aversion behavior  IAGP 5509061 MGIPMID:16554468
Slc6a9Mouseabnormal cued conditioning behavior  IAGP 5509061 MGIPMID:16554468
Slc6a9Mouseabnormal inhibitory postsynaptic currents  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseabnormal latent inhibition of conditioning behavior  IAGP 5509061 MGIPMID:16554468
Slc6a9Mouseabnormal limb posture  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseabnormal motor capabilities/coordination/movement  IAGP 5509061 MGIPMID:20468048
Slc6a9Mouseabnormal nervous system electrophysiology  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseabnormal nervous system physiology  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseabnormal nervous system physiology  IAGP 5509061 MGIPMID:15159536
Slc6a9Mouseabnormal neuron physiology  IAGP 5509061 MGIPMID:20468048
Slc6a9Mouseabnormal NMDA-mediated synaptic currents  IAGP 5509061 MGIPMID:15159536
Slc6a9Mouseabnormal sensorimotor gating  IAGP 5509061 MGIPMID:15159536
Slc6a9Mouseabnormal spatial learning  IAGP 5509061 MGIPMID:15159536
Slc6a9Mouseabnormal suckling behavior  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseabsent gastric milk in neonates  IAGP 5509061 MGIPMID:14622582
Slc6a9Mouseapnea  IAGP 5509061 MGIPMID:14622582
Slc6a9Mousebradykinesia  IAGP 5509061 MGIPMID:14622582
Slc6a9Mousedecreased body weight  IAGP 5509061 MGIPMID:14622582
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#
Reference Title
Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. MGD IEA MGD IEA
5. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
6. Mouse MP Annotation Import Pipeline RGD automated import pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Chromosomal proteins HMGN3a and HMGN3b regulate the expression of glycine transporter 1. West KL, etal., Mol Cell Biol 2004 May;24(9):3747-56.
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PMID:1618338   PMID:7595479   PMID:7823028   PMID:7891186   PMID:8183239   PMID:8226790   PMID:8667011   PMID:8811182   PMID:8889548   PMID:8921405   PMID:10349636   PMID:11042159  
PMID:11076861   PMID:12477932   PMID:14615585   PMID:14622582   PMID:14625556   PMID:14681479   PMID:14998930   PMID:15159536   PMID:15226823   PMID:15363391   PMID:15489334   PMID:15555781  
PMID:15661817   PMID:15672418   PMID:15782199   PMID:16026391   PMID:16125675   PMID:16141072   PMID:16141073   PMID:16554468   PMID:16602821   PMID:17010320   PMID:17301087   PMID:17724084  
PMID:17729288   PMID:17907847   PMID:18094249   PMID:18331477   PMID:18926818   PMID:19088125   PMID:19332109   PMID:19339595   PMID:19502485   PMID:19596361   PMID:19692620   PMID:19824767  
PMID:20092573   PMID:20468048   PMID:20542070   PMID:20637735   PMID:20647165   PMID:20658520   PMID:20826655   PMID:20832426   PMID:21038935   PMID:21267068   PMID:21443867   PMID:21451052  
PMID:21743471   PMID:21873635   PMID:22024716   PMID:22150271   PMID:22323600   PMID:22342492   PMID:22411557   PMID:22695116   PMID:22763616   PMID:22988142   PMID:23652001   PMID:24480413  
PMID:25043729   PMID:25103283   PMID:25168305   PMID:25179941   PMID:25313862   PMID:25497732   PMID:25966682   PMID:25995483   PMID:26302655   PMID:26651292   PMID:26949938   PMID:27385012  
PMID:27481395   PMID:27605619   PMID:27773429   PMID:28199486   PMID:28495915   PMID:28760865   PMID:29137925   PMID:29258872   PMID:29370841   PMID:29467543   PMID:29808289   PMID:29922981  
PMID:30127719   PMID:30208054   PMID:30485816   PMID:31741150   PMID:31942002   PMID:32325033   PMID:32554809   PMID:34061953   PMID:37887344   PMID:38089586   PMID:38187761   PMID:39307290  
PMID:39747033  
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Slc6a9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394117,692,240 - 117,726,502 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4117,691,703 - 117,732,395 (+)EnsemblGRCm39 Ensembl
GRCm384117,835,258 - 117,869,305 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4117,834,506 - 117,875,198 (+)EnsemblGRCm38mm10GRCm38
MGSCv374117,507,863 - 117,541,910 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364117,333,190 - 117,367,237 (+)NCBIMGSCv36mm8
Celera4116,550,328 - 116,584,414 (+)NCBICelera
Cytogenetic Map4D1NCBI
cM Map453.62NCBI
SLC6A9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38143,996,483 - 44,031,462 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl143,991,500 - 44,031,467 (-)EnsemblGRCh38hg38GRCh38
GRCh37144,462,155 - 44,497,134 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36144,234,742 - 44,269,721 (-)NCBINCBI36Build 36hg18NCBI36
Build 34144,132,286 - 44,152,090NCBI
Celera142,745,693 - 42,780,672 (-)NCBICelera
Cytogenetic Map1p34.1NCBI
HuRef142,577,665 - 42,612,669 (-)NCBIHuRef
CHM1_1144,578,322 - 44,613,386 (-)NCBICHM1_1
T2T-CHM13v2.0143,859,929 - 43,902,553 (-)NCBIT2T-CHM13v2.0
Slc6a9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85136,660,022 - 136,694,173 (+)NCBIGRCr8
mRatBN7.25131,374,562 - 131,408,733 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5131,374,542 - 131,408,728 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5134,079,676 - 134,113,767 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05135,834,289 - 135,868,384 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05135,856,719 - 135,890,810 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05136,669,674 - 136,703,702 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5136,669,674 - 136,703,697 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05140,458,723 - 140,492,751 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45138,300,869 - 138,334,893 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15138,313,795 - 138,339,599 (+)NCBI
Celera5129,922,904 - 129,957,106 (+)NCBICelera
Cytogenetic Map5q36NCBI
Slc6a9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555373,520,516 - 3,550,022 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555373,520,516 - 3,549,492 (-)NCBIChiLan1.0ChiLan1.0
SLC6A9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21182,778,098 - 182,813,151 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11181,919,460 - 181,954,476 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0143,298,326 - 43,333,345 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1144,669,364 - 44,704,882 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl144,664,839 - 44,704,882 (-)Ensemblpanpan1.1panPan2
SLC6A9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11516,235,342 - 16,267,161 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1516,235,482 - 16,267,933 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1516,356,708 - 16,389,086 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01516,390,376 - 16,422,650 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1516,390,493 - 16,422,543 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11516,189,225 - 16,221,582 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01516,257,816 - 16,290,585 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01516,330,949 - 16,363,315 (+)NCBIUU_Cfam_GSD_1.0
Slc6a9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505859,487,760 - 59,520,209 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647425,313,201 - 25,345,053 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647425,312,544 - 25,344,993 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC6A9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6167,268,963 - 167,301,599 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16167,267,193 - 167,301,598 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26154,781,274 - 154,783,428 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC6A9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12088,774,354 - 88,809,726 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2088,774,339 - 88,808,669 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603328,117,914 - 28,153,448 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc6a9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248923,275,034 - 3,305,692 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248923,275,034 - 3,308,579 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.

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Variants in Slc6a9
1752 total Variants

Predicted Target Of
Summary Value
Count of predictions:4079
Count of miRNA genes:848
Interacting mature miRNAs:1144
Transcripts:ENSMUST00000030269, ENSMUST00000063857, ENSMUST00000123994, ENSMUST00000132043, ENSMUST00000135769, ENSMUST00000136476, ENSMUST00000149168, ENSMUST00000151316, ENSMUST00000163288, ENSMUST00000169885, ENSMUST00000169990, ENSMUST00000170733
Prediction methods: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.


1 to 10 of 66 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
12904006Cfq1_mconditioned fear QTL 1 (mouse)4117177646120107755Mouse
13824982Svwq1_mseminal vesicle weight QTL 1 (mouse)489888237118857197Mouse
11532714Sluc43_msusceptibility to lung cancer 43 (mouse)446642108123127211Mouse
10047132Albq19_malbuminuria QTL 19 (mouse)Not determined4112824389146824389Mouse
12904002Opfaq9_mopen field activity QTL 9 (mouse)492975790126975790Mouse
4141623W6q13_mweight 6 weeks QTL 13 (mouse)Not determined88982069140468203Mouse
12910797Pwgrq4_mpre-weaning growth rate QTL 4 (mouse)4105835310141433838Mouse
25314312Syncl2_msynaptonemal complex length 2 (mouse)465718237146584457Mouse
1357726Lnopy1_mlens opacity 1 (mouse)Not determined485428838119429037Mouse
12910794Pwbwq8_mpost-weaning body weight QTL 8 (mouse)4105835310141433838Mouse

1 to 10 of 66 rows
Slc6a9  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384117,843,028 - 117,843,130UniSTSGRCm38
MGSCv374117,515,633 - 117,515,735UniSTSGRCm37
Celera4116,558,101 - 116,558,203UniSTS
Cytogenetic Map4D2.1UniSTS
RH141917  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384117,869,048 - 117,869,226UniSTSGRCm38
MGSCv374117,541,653 - 117,541,831UniSTSGRCm37
Celera4116,584,157 - 116,584,335UniSTS
Cytogenetic Map4D2.1UniSTS
Glyt1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384117,868,954 - 117,869,158UniSTSGRCm38
MGSCv374117,541,559 - 117,541,763UniSTSGRCm37
Celera4116,584,063 - 116,584,267UniSTS
Cytogenetic Map4D2.1UniSTS
cM Map452.0UniSTS






1 to 29 of 29 rows
RefSeq Transcripts NM_001355175 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001369016 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001369017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_008135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_867807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK014572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK048168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK178536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL627128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW125877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB672551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC021828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM950151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY015068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF736872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF739178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK627475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO431394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CX221655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X67056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82566 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X82572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 29 of 29 rows

Ensembl Acc Id: ENSMUST00000030269   ⟹   ENSMUSP00000030269
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,692,248 - 117,726,502 (+)Ensembl
GRCm38.p6 Ensembl4117,835,051 - 117,869,305 (+)Ensembl
Ensembl Acc Id: ENSMUST00000063857   ⟹   ENSMUSP00000066102
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,691,703 - 117,726,493 (+)Ensembl
GRCm38.p6 Ensembl4117,834,506 - 117,869,296 (+)Ensembl
Ensembl Acc Id: ENSMUST00000123994   ⟹   ENSMUSP00000127806
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,712,689 - 117,714,624 (+)Ensembl
GRCm38.p6 Ensembl4117,855,492 - 117,857,427 (+)Ensembl
Ensembl Acc Id: ENSMUST00000132043   ⟹   ENSMUSP00000122676
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,706,390 - 117,721,201 (+)Ensembl
GRCm38.p6 Ensembl4117,849,193 - 117,864,004 (+)Ensembl
Ensembl Acc Id: ENSMUST00000135769
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,712,741 - 117,713,224 (+)Ensembl
GRCm38.p6 Ensembl4117,855,544 - 117,856,027 (+)Ensembl
Ensembl Acc Id: ENSMUST00000136476
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,692,635 - 117,714,368 (+)Ensembl
GRCm38.p6 Ensembl4117,835,438 - 117,857,171 (+)Ensembl
Ensembl Acc Id: ENSMUST00000149168   ⟹   ENSMUSP00000129359
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,692,530 - 117,732,393 (+)Ensembl
GRCm38.p6 Ensembl4117,835,333 - 117,875,196 (+)Ensembl
Ensembl Acc Id: ENSMUST00000151316   ⟹   ENSMUSP00000118372
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,692,192 - 117,700,306 (+)Ensembl
GRCm38.p6 Ensembl4117,834,995 - 117,843,109 (+)Ensembl
Ensembl Acc Id: ENSMUST00000163288   ⟹   ENSMUSP00000127289
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,706,567 - 117,725,622 (+)Ensembl
GRCm38.p6 Ensembl4117,849,370 - 117,868,425 (+)Ensembl
Ensembl Acc Id: ENSMUST00000169885   ⟹   ENSMUSP00000127093
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,692,594 - 117,725,534 (+)Ensembl
GRCm38.p6 Ensembl4117,835,397 - 117,868,337 (+)Ensembl
Ensembl Acc Id: ENSMUST00000169990   ⟹   ENSMUSP00000127203
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,706,396 - 117,721,201 (+)Ensembl
GRCm38.p6 Ensembl4117,849,199 - 117,864,004 (+)Ensembl
Ensembl Acc Id: ENSMUST00000170733
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4117,731,279 - 117,732,395 (+)Ensembl
GRCm38.p6 Ensembl4117,874,082 - 117,875,198 (+)Ensembl
RefSeq Acc Id: NM_001355175   ⟹   NP_001342104
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394117,706,547 - 117,726,501 (+)NCBI
GRCm384117,849,350 - 117,869,304 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001369016   ⟹   NP_001355945
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394117,692,807 - 117,726,501 (+)NCBI
GRCm384117,835,610 - 117,869,304 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001369017   ⟹   NP_001355946
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394117,712,744 - 117,726,501 (+)NCBI
GRCm384117,855,547 - 117,869,304 (+)NCBI
Sequence:
RefSeq Acc Id: NM_008135   ⟹   NP_032161
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394117,692,455 - 117,726,502 (+)NCBI
GRCm384117,835,258 - 117,869,305 (+)ENTREZGENE
MGSCv374117,507,863 - 117,541,910 (+)RGD
Celera4116,550,328 - 116,584,414 (+)RGD
cM Map4 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036163684   ⟹   XP_036019577
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394117,692,240 - 117,726,502 (+)NCBI
Sequence:
RefSeq Acc Id: XR_867807
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm394117,706,363 - 117,726,502 (+)NCBI
GRCm384117,849,289 - 117,869,305 (+)NCBI
Sequence:
1 to 5 of 14 rows
1 to 5 of 14 rows
RefSeq Acc Id: NP_032161   ⟸   NM_008135
- Peptide Label: isoform 1
- UniProtKB: E9Q3V0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001355945   ⟸   NM_001369016
- Peptide Label: isoform 1
- UniProtKB: E9Q3V0 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001342104   ⟸   NM_001355175
- Peptide Label: isoform 2
- UniProtKB: E9Q3V0 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001355946   ⟸   NM_001369017
- Peptide Label: isoform 3 precursor
- UniProtKB: E9Q517 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSMUSP00000127289   ⟸   ENSMUST00000163288

Name Modeler Protein Id AA Range Protein Structure
AF-P28571-F1-model_v2 AlphaFold P28571 1-692 view protein structure

RGD ID:6836413
Promoter ID:MM_KWN:39261
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Liver,   MEF_B4
Transcripts:ENSMUST00000063857,   OTTMUST00000019609,   OTTMUST00000019610,   OTTMUST00000019612,   OTTMUST00000019613,   OTTMUST00000019616
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364117,507,819 - 117,508,319 (+)MPROMDB
RGD ID:6847855
Promoter ID:MM_ACW:35477
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney
Transcripts:SLC6A9.HSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv364117,540,226 - 117,540,726 (+)MPROMDB
RGD ID:6884378
Promoter ID:EPDNEW_M5640
Type:initiation region
Name:Slc6a9_1
Description:Mus musculus solute carrier family 6 (neurotransmitter transporter,glycine), member 9 , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm384117,835,321 - 117,835,381EPDNEW


1 to 32 of 32 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSMUSG00000028542 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000030269 ENTREZGENE
  ENSMUST00000030269.14 UniProtKB/Swiss-Prot
  ENSMUST00000063857 ENTREZGENE
  ENSMUST00000063857.11 UniProtKB/Swiss-Prot
  ENSMUST00000163288 ENTREZGENE
  ENSMUST00000169885 ENTREZGENE
InterPro Na/ntran_symport UniProtKB/Swiss-Prot
  Na/ntran_symport_glycine_GLY1 UniProtKB/Swiss-Prot
  SNS_sf UniProtKB/Swiss-Prot
KEGG Report mmu:14664 UniProtKB/Swiss-Prot
MGD MGI:95760 ENTREZGENE
NCBI Gene 14664 ENTREZGENE
PANTHER PTHR11616 UniProtKB/Swiss-Prot
  SODIUM- AND CHLORIDE-DEPENDENT GLYCINE TRANSPORTER 1 UniProtKB/Swiss-Prot
Pfam SNF UniProtKB/Swiss-Prot
PhenoGen Slc6a9 PhenoGen
PRINTS GLY1TRNSPORT UniProtKB/Swiss-Prot
  NANEUSMPORT UniProtKB/Swiss-Prot
PROSITE NA_NEUROTRAN_SYMP_1 UniProtKB/Swiss-Prot
  NA_NEUROTRAN_SYMP_2 UniProtKB/Swiss-Prot
  NA_NEUROTRAN_SYMP_3 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF161070 UniProtKB/Swiss-Prot
UniProt E9PWC4_MOUSE UniProtKB/TrEMBL
  E9Q036_MOUSE UniProtKB/TrEMBL
  E9Q3V0 ENTREZGENE, UniProtKB/TrEMBL
  E9Q3Z2_MOUSE UniProtKB/TrEMBL
  E9Q517 ENTREZGENE, UniProtKB/TrEMBL
  E9QA02_MOUSE UniProtKB/TrEMBL
  P28571 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary B1ASI9 UniProtKB/Swiss-Prot
  Q8VC47 UniProtKB/Swiss-Prot
1 to 32 of 32 rows