Human Gene SLC1A7 (uc021onn.1)
  Description: Homo sapiens solute carrier family 1 (glutamate transporter), member 7 (SLC1A7), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:53,552,855-53,608,289 Size: 55,435 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr1:53,553,681-53,608,121 Size: 54,441 Coding Exon Count: 11 

Page IndexSequence and LinksPrimersGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:53,552,855-53,608,289)mRNA (may differ from genome)Protein (619 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHuman Cortex Gene ExpressionLynxMGI
OMIMPubMedTreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SLC1A7
CDC HuGE Published Literature: SLC1A7
Positive Disease Associations: Amyotrophic Lateral Sclerosis , Lupus Erythematosus, Systemic
Related Studies:
  1. Amyotrophic Lateral Sclerosis
    Jennifer C Schymick et al. Lancet neurology 2007, Genome-wide genotyping in amyotrophic lateral sclerosis and neurologically normal controls: first stage analysis and public release of data., Lancet neurology. [PubMed 17362836]
    We generated publicly available genotype data for sporadic ALS patients and controls. No single locus was definitively associated with increased risk of developing disease, although potentially associated candidate SNPs were identified.
  2. Lupus Erythematosus, Systemic
    Sharon A Chung et al. PLoS genetics 2011, Differential genetic associations for systemic lupus erythematosus based on anti-dsDNA autoantibody production., PLoS genetics. [PubMed 21408207]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 3.81 RPKM in Nerve - Tibial
Total median expression: 50.61 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -74.30168-0.442 Picture PostScript Text
3' UTR -333.40826-0.404 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001991 - Na-dicarboxylate_symporter
IPR018107 - Na-dicarboxylate_symporter_CS

Pfam Domains:
PF00375 - Sodium:dicarboxylate symporter family

ModBase Predicted Comparative 3D Structure on G1CT06
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0015293 symporter activity

Biological Process:
GO:0055085 transmembrane transport

Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AB593061 - Homo sapiens SLC1A7 mRNA for excitatory amino acid transporter 5, complete cds, clone: HP05260-RBdS083G15.
BC012119 - Homo sapiens solute carrier family 1 (glutamate transporter), member 7, mRNA (cDNA clone MGC:20150 IMAGE:4634197), complete cds.
BC017242 - Homo sapiens solute carrier family 1 (glutamate transporter), member 7, mRNA (cDNA clone MGC:23343 IMAGE:4646259), complete cds.
AK093921 - Homo sapiens cDNA FLJ36602 fis, clone TRACH2014974, highly similar to EXCITATORY AMINO ACID TRANSPORTER 5.
AX748366 - Sequence 1891 from Patent EP1308459.
AB593059 - Homo sapiens SLC1A7 mRNA for excitatory amino acid transporter 5, complete cds, clone: HP05260-RBb07H05.
AB593060 - Homo sapiens SLC1A7 mRNA for excitatory amino acid transporter 5, complete cds, clone: HP05260-RBdS075N16.
JD123094 - Sequence 104118 from Patent EP1572962.
JD525412 - Sequence 506436 from Patent EP1572962.
JD122429 - Sequence 103453 from Patent EP1572962.
JD118883 - Sequence 99907 from Patent EP1572962.
JD129268 - Sequence 110292 from Patent EP1572962.
JD076806 - Sequence 57830 from Patent EP1572962.
JD554818 - Sequence 535842 from Patent EP1572962.
JD216676 - Sequence 197700 from Patent EP1572962.
JD330649 - Sequence 311673 from Patent EP1572962.
U76362 - Human retinal glutamate transporter EAAT5 mRNA, complete cds.
JD227167 - Sequence 208191 from Patent EP1572962.
JD314302 - Sequence 295326 from Patent EP1572962.
JF917096 - Homo sapiens excitatory amino acid transporter 5a long variant mRNA, complete cds.
KJ897564 - Synthetic construct Homo sapiens clone ccsbBroadEn_06958 SLC1A7 gene, encodes complete protein.
DQ892299 - Synthetic construct clone IMAGE:100004929; FLH185005.01X; RZPDo839E03146D solute carrier family 1 (glutamate transporter), member 7 (SLC1A7) gene, encodes complete protein.
DQ895498 - Synthetic construct Homo sapiens clone IMAGE:100009958; FLH185002.01L; RZPDo839E03145D solute carrier family 1 (glutamate transporter), member 7 (SLC1A7) gene, encodes complete protein.
JX162773 - Homo sapiens solute carrier family 1 member 7 (SLC1A7) mRNA, partial cds.
CU680222 - Synthetic construct Homo sapiens gateway clone IMAGE:100020710 5' read SLC1A7 mRNA.
BC000651 - Homo sapiens solute carrier family 1 (glutamate transporter), member 7, mRNA (cDNA clone IMAGE:3342757), complete cds.
KJ905922 - Synthetic construct Homo sapiens clone ccsbBroadEn_15592 SLC1A7 gene, encodes complete protein.
JD107745 - Sequence 88769 from Patent EP1572962.
JD172028 - Sequence 153052 from Patent EP1572962.
JD065049 - Sequence 46073 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: G1CT06, G1CT06_HUMAN, JF917096, NM_006671, NP_006662
UCSC ID: uc021onn.1
RefSeq Accession: NM_006671
Protein: G1CT06

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: JF917096.1
exon count: 11CDS single in 3' UTR: no RNA size: 1860
ORF size: 1860CDS single in intron: no Alignment % ID: 99.84
txCdsPredict score: 3805.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.