Human Gene SLC38A2 (uc001rph.3) Description and Page Index
  Description: Homo sapiens solute carrier family 38, member 2 (SLC38A2), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:46,751,971-46,766,645 Size: 14,675 Total Exon Count: 15 Strand: -
Coding Region
   Position: hg19 chr12:46,754,894-46,764,572 Size: 9,679 Coding Exon Count: 13 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:46,751,971-46,766,645)mRNA (may differ from genome)Protein (406 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMGIPubMedReactome
Stanford SOURCETreefamUniProtKBWikipedia

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D013739 Testosterone
  • D013749 Tetrachlorodibenzodioxin
  • D014050 Toluene
  • C015001 arsenite
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C029141 2,2,5,7,8-pentamethyl-1-hydroxychroman
  • C016403 2,4-dinitrotoluene
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • C017911 2-(methylamino)isobutyric acid
          more ... click here to view the complete list

+  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: 182.15 RPKM in Cells - Cultured fibroblasts
Total median expression: 2518.37 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 -191.82624-0.307 Picture PostScript Text
3' UTR -765.372923-0.262 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
  Pfam Domains:
PF01490 - Transmembrane amino acid transporter protein

ModBase Predicted Comparative 3D Structure on Q96QD8-2
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     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AF116669 - Homo sapiens PRO1828 mRNA, complete cds.
BC016909 - Homo sapiens solute carrier family 38, member 2, mRNA (cDNA clone IMAGE:4420731), with apparent retained intron.
AF259799 - Homo sapiens amino acid transporter system A2 (ATA2) mRNA, complete cds.
BC040342 - Homo sapiens solute carrier family 38, member 2, mRNA (cDNA clone MGC:8808 IMAGE:3874551), complete cds.
AJ344099 - Homo sapiens mRNA for putative 40-9-1 protein.
AB037803 - Homo sapiens KIAA1382 mRNA for KIAA1382 protein.
AF298897 - Homo sapiens amino acid transporter system A (ATA2) mRNA, complete cds.
BC029379 - Homo sapiens solute carrier family 38, member 2, mRNA (cDNA clone IMAGE:4617225), complete cds.
AF116620 - Homo sapiens PRO1068 mRNA, complete cds.
JD469415 - Sequence 450439 from Patent EP1572962.
AK001700 - Homo sapiens cDNA FLJ10838 fis, clone NT2RP4001274, weakly similar to Human transporter protein (g17) mRNA.
JD237671 - Sequence 218695 from Patent EP1572962.
JD094938 - Sequence 75962 from Patent EP1572962.
JD113104 - Sequence 94128 from Patent EP1572962.
JD492171 - Sequence 473195 from Patent EP1572962.
JD087762 - Sequence 68786 from Patent EP1572962.
JD184551 - Sequence 165575 from Patent EP1572962.
JD350837 - Sequence 331861 from Patent EP1572962.
JD535017 - Sequence 516041 from Patent EP1572962.
JD454134 - Sequence 435158 from Patent EP1572962.
JD468287 - Sequence 449311 from Patent EP1572962.
JD037946 - Sequence 18970 from Patent EP1572962.
AK172784 - Homo sapiens cDNA FLJ23945 fis, clone HEP04785, highly similar to Homo sapiens solute carrier family 38, member 2 (SLC38A2).
JD045491 - Sequence 26515 from Patent EP1572962.
JD543876 - Sequence 524900 from Patent EP1572962.
JD312402 - Sequence 293426 from Patent EP1572962.
JD022824 - Sequence 3848 from Patent EP1572962.
JD168031 - Sequence 149055 from Patent EP1572962.
JD232795 - Sequence 213819 from Patent EP1572962.
DL492126 - Novel nucleic acids.
AK291644 - Homo sapiens cDNA FLJ75876 complete cds, highly similar to Homo sapiens solute carrier family 38, member 2 (SLC38A2), mRNA.
JD506548 - Sequence 487572 from Patent EP1572962.
AK293858 - Homo sapiens cDNA FLJ56316 complete cds, highly similar to Homo sapiens solute carrier family 38, member 2 (SLC38A2), mRNA.
JD334334 - Sequence 315358 from Patent EP1572962.
JD301325 - Sequence 282349 from Patent EP1572962.
CR457267 - Homo sapiens full open reading frame cDNA clone RZPDo834D0213D for gene SLC38A2, solute carrier family 38, member 2; complete cds, incl. stopcodon.
AB384191 - Synthetic construct DNA, clone: pF1KSDA1382, Homo sapiens SLC38A2 gene for solute carrier family 38, member 2, complete cds, without stop codon, in Flexi system.
DQ891801 - Synthetic construct clone IMAGE:100004431; FLH180082.01X; RZPDo839F09132D solute carrier family 38, member 2 (SLC38A2) gene, encodes complete protein.
KJ894019 - Synthetic construct Homo sapiens clone ccsbBroadEn_03413 SLC38A2 gene, encodes complete protein.
DQ894985 - Synthetic construct Homo sapiens clone IMAGE:100009445; FLH180078.01L; RZPDo839F09131D solute carrier family 38, member 2 (SLC38A2) gene, encodes complete protein.
CU691856 - Synthetic construct Homo sapiens gateway clone IMAGE:100019719 5' read SLC38A2 mRNA.
JD391769 - Sequence 372793 from Patent EP1572962.
JD412080 - Sequence 393104 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96QD8 (Reactome details) participates in the following event(s):

R-HSA-212642 L-Glutamine transport into neurons
R-HSA-352108 Metabolism of nitrogenous molecules
R-HSA-210500 Glutamate Neurotransmitter Release Cycle
R-HSA-352230 Amino acid transport across the plasma membrane
R-HSA-112310 Neurotransmitter release cycle
R-HSA-425374 Amino acid and oligopeptide SLC transporters
R-HSA-425393 Metabolism of nitrogenous molecules
R-HSA-112315 Transmission across Chemical Synapses
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-112316 Neuronal System
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: AK001700, ATA2, KIAA1382, Q96QD8-2, SAT2, SNAT2
UCSC ID: uc001rph.3
RefSeq Accession: NM_018976
Protein: Q96QD8-2, splice isoform of Q96QD8

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK001700.1
exon count: 15CDS single in 3' UTR: no RNA size: 4384
ORF size: 1221CDS single in intron: no Alignment % ID: 99.91
txCdsPredict score: 2450.50frame shift in genome: no % Coverage: 99.95
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.