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Aliases for SLC38A9 Gene

Aliases for SLC38A9 Gene

  • Solute Carrier Family 38 Member 9 2 3 4 5
  • Up-Regulated In Lung Cancer 11 3 4
  • URLC11 3 4
  • Putative Sodium-Coupled Neutral Amino Acid Transporter 9 3
  • Sodium-Coupled Neutral Amino Acid Transporter 9 3
  • Solute Carrier Family 38, Member 9 2

External Ids for SLC38A9 Gene

Previous GeneCards Identifiers for SLC38A9 Gene

  • GC05M054958
  • GC05M051895

Summaries for SLC38A9 Gene

GeneCards Summary for SLC38A9 Gene

SLC38A9 (Solute Carrier Family 38 Member 9) is a Protein Coding gene. GO annotations related to this gene include amino acid transmembrane transporter activity.

UniProtKB/Swiss-Prot for SLC38A9 Gene

  • Lysosomal amino acid transporter involved in the activation of mTORC1 in response to amino acids. Probably acts as an amino acid sensor of the Rag GTPases and Ragulator complexes, 2 complexes involved in amino acid sensing and activation of mTORC1, a signaling complex promoting cell growth in response to growth factors, energy levels, and amino acids (PubMed:25561175, PubMed:25567906). Following activation by amino acids, the Ragulator and Rag GTPases function as a scaffold recruiting mTORC1 to lysosomes where it is in turn activated. SLC38A9 mediates transport of amino acids with low capacity and specificity with a slight preference for polar amino acids, suggesting that it acts as an amino acid sensor instead (PubMed:25561175, PubMed:25567906). The high concentration of arginine in lysosomes suggests that it acts as an arginine sensor (PubMed:25567906).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLC38A9 Gene

Genomics for SLC38A9 Gene

Regulatory Elements for SLC38A9 Gene

Enhancers for SLC38A9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
- Elite enhancer/Elite enhancer-gene association

Enhancers around SLC38A9 on UCSC Golden Path with GeneCards custom track

Genomic Location for SLC38A9 Gene

Chromosome:
5
Start:
55,625,845 bp from pter
End:
55,773,194 bp from pter
Size:
147,350 bases
Orientation:
Minus strand

Genomic View for SLC38A9 Gene

Genes around SLC38A9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLC38A9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLC38A9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC38A9 Gene

Proteins for SLC38A9 Gene

  • Protein details for SLC38A9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NBW4-S38A9_HUMAN
    Recommended name:
    Sodium-coupled neutral amino acid transporter 9
    Protein Accession:
    Q8NBW4
    Secondary Accessions:
    • A0A0A8K8P2
    • B3KXV1
    • B7Z7D0
    • Q0P5S0
    • Q6MZJ8

    Protein attributes for SLC38A9 Gene

    Size:
    561 amino acids
    Molecular mass:
    63776 Da
    Quaternary structure:
    • Associated component of the Ragulator complex (composed of LAMTOR1, LAMTOR2, LAMTOR3, LAMTOR4 and LAMTOR5). Associated component of the Rag GTPases heterodimers (composed of RRAGA, RRAGB, RRAGC and RRAGD).
    SequenceCaution:
    • Sequence=BAQ19756.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for SLC38A9 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLC38A9 Gene

Post-translational modifications for SLC38A9 Gene

No data available for DME Specific Peptides for SLC38A9 Gene

Domains & Families for SLC38A9 Gene

Gene Families for SLC38A9 Gene

Protein Domains for SLC38A9 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q8NBW4

UniProtKB/Swiss-Prot:

S38A9_HUMAN :
  • The cytosolic N-terminus part of the protein mediates interaction with the Ragulator complex and the Rag GTPases heterodimers.
  • Belongs to the amino acid/polyamine transporter 2 family. SLC38A9 subfamily.
Domain:
  • The cytosolic N-terminus part of the protein mediates interaction with the Ragulator complex and the Rag GTPases heterodimers.
Family:
  • Belongs to the amino acid/polyamine transporter 2 family. SLC38A9 subfamily.
genes like me logo Genes that share domains with SLC38A9: view

Function for SLC38A9 Gene

Molecular function for SLC38A9 Gene

UniProtKB/Swiss-Prot Function:
Lysosomal amino acid transporter involved in the activation of mTORC1 in response to amino acids. Probably acts as an amino acid sensor of the Rag GTPases and Ragulator complexes, 2 complexes involved in amino acid sensing and activation of mTORC1, a signaling complex promoting cell growth in response to growth factors, energy levels, and amino acids (PubMed:25561175, PubMed:25567906). Following activation by amino acids, the Ragulator and Rag GTPases function as a scaffold recruiting mTORC1 to lysosomes where it is in turn activated. SLC38A9 mediates transport of amino acids with low capacity and specificity with a slight preference for polar amino acids, suggesting that it acts as an amino acid sensor instead (PubMed:25561175, PubMed:25567906). The high concentration of arginine in lysosomes suggests that it acts as an arginine sensor (PubMed:25567906).

Gene Ontology (GO) - Molecular Function for SLC38A9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25561175
GO:0015171 amino acid transmembrane transporter activity IDA 25561175
genes like me logo Genes that share ontologies with SLC38A9: view
genes like me logo Genes that share phenotypes with SLC38A9: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SLC38A9

CRISPR Products

miRNA for SLC38A9 Gene

miRTarBase miRNAs that target SLC38A9

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SLC38A9 Gene

Localization for SLC38A9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC38A9 Gene

Lysosome membrane; Multi-pass membrane protein. Late endosome membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SLC38A9 Gene COMPARTMENTS Subcellular localization image for SLC38A9 gene
Compartment Confidence
endosome 5
lysosome 5
vacuole 5
endoplasmic reticulum 3
plasma membrane 3
nucleus 2

Gene Ontology (GO) - Cellular Components for SLC38A9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005764 lysosome IDA 25561175
GO:0005765 lysosomal membrane IEA --
GO:0005770 late endosome IDA 25561175
GO:0005783 endoplasmic reticulum IBA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SLC38A9: view

Pathways & Interactions for SLC38A9 Gene

SuperPathways for SLC38A9 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SLC38A9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003333 amino acid transmembrane transport IDA 25567906
GO:0006865 amino acid transport IEA --
GO:0032008 positive regulation of TOR signaling IDA 25561175
GO:0071230 cellular response to amino acid stimulus IDA 25561175
genes like me logo Genes that share ontologies with SLC38A9: view

No data available for Pathways by source and SIGNOR curated interactions for SLC38A9 Gene

Drugs & Compounds for SLC38A9 Gene

No Compound Related Data Available

Transcripts for SLC38A9 Gene

Unigene Clusters for SLC38A9 Gene

Solute carrier family 38, member 9:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC38A9 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11
SP1: - - - -
SP2:
SP3:
SP4: - -

Relevant External Links for SLC38A9 Gene

GeneLoc Exon Structure for
SLC38A9
ECgene alternative splicing isoforms for
SLC38A9

Expression for SLC38A9 Gene

mRNA expression in normal human tissues for SLC38A9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SLC38A9 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SLC38A9 Gene



Protein tissue co-expression partners for SLC38A9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SLC38A9 Gene:

SLC38A9

SOURCE GeneReport for Unigene cluster for SLC38A9 Gene:

Hs.745105
genes like me logo Genes that share expression patterns with SLC38A9: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SLC38A9 Gene

Orthologs for SLC38A9 Gene

This gene was present in the common ancestor of animals.

Orthologs for SLC38A9 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SLC38A9 34
  • 92.3 (n)
  • 91.72 (a)
SLC38A9 35
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SLC38A9 34
  • 92.77 (n)
  • 91.76 (a)
SLC38A9 35
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Slc38a9 34
  • 89.11 (n)
  • 91.43 (a)
Slc38a9 16
Slc38a9 35
  • 91 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SLC38A9 34
  • 99.41 (n)
  • 99.11 (a)
SLC38A9 35
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Slc38a9 34
  • 88.55 (n)
  • 91.23 (a)
oppossum
(Monodelphis domestica)
Mammalia SLC38A9 35
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SLC38A9 35
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves SLC38A9 34
  • 72.7 (n)
  • 72.94 (a)
SLC38A9 35
  • 70 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SLC38A9 35
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slc38a9 34
  • 68.48 (n)
  • 72.37 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.2883 34
zebrafish
(Danio rerio)
Actinopterygii slc38a9 34
  • 65.53 (n)
  • 65.4 (a)
slc38a9 35
  • 64 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea F13H10.3 34
  • 51.13 (n)
  • 43.92 (a)
F13H10.3 35
  • 35 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10819 35
  • 35 (a)
OneToOne
Species where no ortholog for SLC38A9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SLC38A9 Gene

ENSEMBL:
Gene Tree for SLC38A9 (if available)
TreeFam:
Gene Tree for SLC38A9 (if available)

Paralogs for SLC38A9 Gene

genes like me logo Genes that share paralogs with SLC38A9: view

No data available for Paralogs for SLC38A9 Gene

Variants for SLC38A9 Gene

Sequence variations from dbSNP and Humsavar for SLC38A9 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs4865615 - 55,664,845(+) CCCAG(C/G)TAGTG intron-variant, nc-transcript-variant, reference, missense
rs3910966 -- 55,702,794(-) AAATG(C/T)ACATA intron-variant, nc-transcript-variant, utr-variant-5-prime
rs3910967 -- 55,702,676(-) AAAGG(A/G)AAAAC intron-variant
rs3914029 -- 55,681,421(-) AAAGT(G/T)GTATG intron-variant
rs3914032 -- 55,698,575(-) ACTCT(G/T)ATTGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SLC38A9 Gene

Variant ID Type Subtype PubMed ID
esv2759343 CNV gain 17122850
esv3424207 CNV insertion 20981092
esv3447394 CNV duplication 20981092
nsv1109697 CNV deletion 24896259
nsv1123947 CNV deletion 24896259
nsv329478 CNV deletion 16902084
nsv507253 OTHER sequence alteration 20534489
nsv507254 OTHER sequence alteration 20534489
nsv830304 CNV gain+loss 17160897
nsv830305 CNV loss 17160897
nsv830306 CNV gain 17160897

Variation tolerance for SLC38A9 Gene

Residual Variation Intolerance Score: 57.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.79; 33.80% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SLC38A9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLC38A9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLC38A9 Gene

Disorders for SLC38A9 Gene

Relevant External Links for SLC38A9

Genetic Association Database (GAD)
SLC38A9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLC38A9

No disorders were found for SLC38A9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLC38A9 Gene

Publications for SLC38A9 Gene

  1. SLC38A9 is a component of the lysosomal amino acid sensing machinery that controls mTORC1. (PMID: 25561175) Rebsamen M. … Superti-Furga G. (Nature 2015) 2 3 4 65
  2. Metabolism. Lysosomal amino acid transporter SLC38A9 signals arginine sufficiency to mTORC1. (PMID: 25567906) Wang S. … Sabatini D.M. (Science 2015) 2 3 4 65
  3. Hundreds of variants clustered in genomic loci and biological pathways affect human height. (PMID: 20881960) Lango Allen H. … Hirschhorn J.N. (Nature 2010) 3 46 65
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 65
  5. Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci. (PMID: 25429064) He M. … Qi L. (Hum. Mol. Genet. 2015) 3 65

Products for SLC38A9 Gene

Sources for SLC38A9 Gene

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