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Slc6a9 solute carrier family 6 member 9 [ Rattus norvegicus (Norway rat) ]

Gene ID: 116509, updated on 2-Nov-2024

Summary

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Official Symbol
Slc6a9provided by RGD
Official Full Name
solute carrier family 6 member 9provided by RGD
Primary source
RGD:621243
See related
EnsemblRapid:ENSRNOG00000019484 AllianceGenome:RGD:621243
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Glyt1; GLYT-1; GLYT-1b
Summary
Enables glycine:sodium symporter activity. Involved in glycine import across plasma membrane. Located in dense core granule; endosome; and plasma membrane. Is active in several cellular components, including hippocampal mossy fiber to CA3 synapse; parallel fiber to Purkinje cell synapse; and synaptic membrane. Orthologous to human SLC6A9 (solute carrier family 6 member 9). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 173.1), Liver (RPKM 105.1) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Slc6a9 in Genome Data Viewer
Location:
5q36
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (136660022..136694173)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (131374562..131408733)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (136669674..136703702)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486978 Neighboring gene KLF transcription factor 17 Neighboring gene uncharacterized LOC120102957 Neighboring gene coiled-coil domain containing 24 Neighboring gene beta-1,4-galactosyltransferase 2 Neighboring gene ATPase H+ transporting V0 subunit B

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Localization of the GLYT1 glycine transporter at glutamatergic synapses in the rat brain. Cubelos B, et al. Cereb Cortex, 2005 Apr. PMID 15749988
  2. Regulation of the Glycine Transporter GLYT1 by microRNAs. Jiménez E, et al. Neurochem Res, 2022 Jan. PMID 33484385
  3. Glycine transporter-1 expression in the rat model of cortical dysplasia. Aykut-Bingol C, et al. Neurol Res, 2008 Nov. PMID 18775105
  4. Immunohistochemical and in situ hybridization studies on glycine transporter 1 after transient ischemia in the rat forebrain. Kalló I, et al. Neurochem Int, 2008 Mar-Apr. PMID 17980459
  5. Rescue of hippocampal LTP and learning deficits in a rat model of psychosis by inhibition of glycine transporter-1 (GlyT1). Manahan-Vaughan D, et al. Eur J Neurosci, 2008 Oct. PMID 18973561

See all (32) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Regulation of the Glycine Transporter GLYT1 by microRNAs.
    Title: Regulation of the Glycine Transporter GLYT1 by microRNAs.
  2. Study demonstrated a biphasic response of GlyT1 expression during epileptogenesis with initial downregulation of GlyT1 after epileptogenesis-precipitating seizures followed by sustained pathological overexpression of GlyT1 in chronic epilepsy
    Title: Glycine transporter 1 is a target for the treatment of epilepsy.
  3. Study showed that glycine uptake mediated by GlyT1 and GlyT2 in astrocytes is modulated by BDNF
    Title: BDNF, via truncated TrkB receptor, modulates GlyT1 and GlyT2 in astrocytes.
  4. astrocytes express functional GlyT2, which challenge previous findings that those cells would express only GlyT1
    Title: GlyT1 and GlyT2 in brain astrocytes: expression, distribution and function.
  5. Double labeling for GLYT1 and synaptophysin of this vesicular fraction revealed that more of ninety percent of them were synaptic vesicles
    Title: Localization of the glycine transporter GLYT1 in glutamatergic synaptic vesicles.
  6. Inhibition of GlyT1 reduces the frequency of spontaneous network events in the hippocampus.
    Title: Glycine transporter-1 controls nonsynaptic inhibitory actions of glycine receptors in the neonatal rat hippocampus.
  7. Glycine transport by GLYT1 is inhibited by lithium whereas GLYT2 transport is stimulated, and this effect is more evident at increased glycine concentrations.
    Title: Molecular basis of the differential interaction with lithium of glycine transporters GLYT1 and GLYT2.
  8. study analyzed transient currents of recombinant GlyT1b variant protein and related their properties to characteristics of steady transport currents; numerical simulations show a simplified, 3-state model explains main features of GlyT1b operation
    Title: Transient currents in the glycine cotransporter GlyT1 reveal different steps in transport mechanism.
  9. In conclusion, GlyT1 most likely mediates glycine transport at the inner BRB and is expected to play an important role in regulating the glycine concentration in the neural retina.
    Title: Characteristics of glycine transport across the inner blood-retinal barrier.
  10. Results show that endocytosis is impaired in an ubiquitination-deficient cell line.
    Title: Constitutive and regulated endocytosis of the glycine transporter GLYT1b is controlled by ubiquitination.
Submit: New GeneRIF Correction See all GeneRIFs (18)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables amino acid:sodium symporter activity IEA
Inferred from Electronic Annotation
more info
  
enables glycine transmembrane transporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables glycine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables glycine transmembrane transporter activity TAS
Traceable Author Statement
more info
 PubMed 
enables glycine:sodium symporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables glycine:sodium symporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables glycine:sodium symporter activity ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in amino acid transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in glycine import across plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in glycine import across plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in glycine import across plasma membrane ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within glycine secretion, neurotransmission ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within glycine transport ISO
Inferred from Sequence Orthology
more info
  
involved_in glycine transport ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of negative regulation of NMDA glutamate receptor activity ISO
Inferred from Sequence Orthology
more info
  
involved_in neurotransmitter transport IEA
Inferred from Electronic Annotation
more info
  
involved_in neurotransmitter uptake ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of heme biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of hemoglobin biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synaptic transmission, glycinergic ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synaptic transmission, glycinergic ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in sodium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in sodium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in synaptic transmission, glycinergic IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in apical plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in asymmetric synapse IDA
Inferred from Direct Assay
more info
 PubMed 
located_in basal plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in basolateral plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in dense core granule IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endosome IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in hippocampal mossy fiber to CA3 synapse IDA
Inferred from Direct Assay
more info
 PubMed 
located_in lateral plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in parallel fiber to Purkinje cell synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in postsynaptic density IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in postsynaptic membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in presynaptic membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in synaptic vesicle membrane IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
sodium- and chloride-dependent glycine transporter 1
Names
glycine transporter 1
solute carrier family 6 (neurotransmitter transporter, glycine), member 9

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_053818.3 → NP_446270.1  sodium- and chloride-dependent glycine transporter 1

    See identical proteins and their annotated locations for NP_446270.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/TrEMBL
    A6JZE5
    Related
    ENSRNOP00000040252.4, ENSRNOT00000048770.5
    Conserved Domains (1) summary
    cd11498
    Location:11 → 594
    SLC6sbd_GlyT1; Na(+)- and Cl(-)-dependent glycine transporter GlyT1; solute-binding domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086023.1 Reference GRCr8

    Range
    136660022..136694173
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039109142.2 → XP_038965070.1  sodium- and chloride-dependent glycine transporter 1 isoform X2

    UniProtKB/TrEMBL
    A0A8L2ULJ7
    Conserved Domains (1) summary
    cl00456
    Location:26 → 556
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain

  2. XM_006238625.5 → XP_006238687.1  sodium- and chloride-dependent glycine transporter 1 isoform X1

    See identical proteins and their annotated locations for XP_006238687.1

    UniProtKB/Swiss-Prot
    A1A5N0, P28572, Q63322, Q63323
    Related
    ENSRNOP00000070161.1, ENSRNOT00000085527.3
    Conserved Domains (1) summary
    cd11498
    Location:16 → 599
    SLC6sbd_GlyT1; Na(+)- and Cl(-)-dependent glycine transporter GlyT1; solute-binding domain

  3. XM_039109143.2 → XP_038965071.1  sodium- and chloride-dependent glycine transporter 1 isoform X2

    UniProtKB/TrEMBL
    A0A8L2ULJ7
    Conserved Domains (1) summary
    cl00456
    Location:26 → 556
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P28572.2 GenPept UniProtKB/Swiss-Prot:P28572

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