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SLC38A2 solute carrier family 38 member 2 [ Homo sapiens (human) ]

Gene ID: 54407, updated on 8-Jan-2023

Summary

Official Symbol
SLC38A2provided by HGNC
Official Full Name
solute carrier family 38 member 2provided by HGNC
Primary source
HGNC:HGNC:13448
See related
Ensembl:ENSG00000134294 MIM:605180; AllianceGenome:HGNC:13448
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ATA2; SAT2; SNAT2; PRO1068
Summary
Enables neutral amino acid:sodium symporter activity. Involved in several processes, including amino acid transport; cellular response to arsenite(3-); and positive regulation of RNA splicing. Located in cytoplasm and plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in skin (RPKM 105.3), liver (RPKM 101.3) and 25 other tissues See more
Orthologs
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Genomic context

See SLC38A2 in Genome Data Viewer
Location:
12q13.11
Exon count:
16
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (46358188..46372773, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (46317747..46332332, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (46751971..46766556, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene solute carrier family 38 member 1 Neighboring gene uncharacterized LOC105378248 Neighboring gene SLC38A2 antisense RNA 1 Neighboring gene SLC38A4 antisense RNA 1 Neighboring gene uncharacterized LOC124902923 Neighboring gene NANOG hESC enhancer GRCh37_chr12:46824129-46824630

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SLC38A2 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1382

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables L-glutamine transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables L-glutamine transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables L-serine transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables acidic amino acid transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables alanine:sodium symporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables amino acid transmembrane transporter activity IDA
Inferred from Direct Assay
more info
PubMed 
enables amino acid transmembrane transporter activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables amino acid transmembrane transporter activity TAS
Traceable Author Statement
more info
 
enables amino acid:sodium symporter activity IDA
Inferred from Direct Assay
more info
PubMed 
enables neutral L-amino acid:sodium symporter activity IDA
Inferred from Direct Assay
more info
PubMed 
enables proline:sodium symporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in L-glutamine import across plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in L-proline import across plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in L-serine import across plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in L-serine transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in acidic amino acid transport IEA
Inferred from Electronic Annotation
more info
 
involved_in alanine transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in amino acid import ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in amino acid transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in amino acid transmembrane transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in amino acid transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in amino acid transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in amino acid transport TAS
Traceable Author Statement
more info
 
involved_in cellular response to amino acid starvation IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to arsenite(3-) IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular response to mechanical stimulus IEA
Inferred from Electronic Annotation
more info
 
involved_in cerebral cortex development IEA
Inferred from Electronic Annotation
more info
 
involved_in female pregnancy IEA
Inferred from Electronic Annotation
more info
 
involved_in glutamine transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in glutamine transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in glycine betaine transport IEA
Inferred from Electronic Annotation
more info
 
involved_in neurotransmitter transport TAS
Traceable Author Statement
more info
 
involved_in neutral amino acid transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of RNA splicing IPI
Inferred from Physical Interaction
more info
PubMed 
involved_in positive regulation of gene expression IPI
Inferred from Physical Interaction
more info
PubMed 
involved_in proline transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of cellular response to stress IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of glutamate secretion, neurotransmission ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in response to muscle activity IEA
Inferred from Electronic Annotation
more info
 
involved_in sodium ion transport IEA
Inferred from Electronic Annotation
more info
 
involved_in transport across blood-brain barrier NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
located_in axon IEA
Inferred from Electronic Annotation
more info
 
located_in brush border IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite IEA
Inferred from Electronic Annotation
more info
 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in sarcolemma IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
sodium-coupled neutral amino acid symporter 2; sodium-coupled neutral amino acid transporter 2
Names
amino acid transporter 2
amino acid transporter A2
protein 40-9-1
system A amino acid transporter 2
system A transporter 1
system N amino acid transporter 2

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_001307936.2NP_001294865.1  sodium-coupled neutral amino acid symporter 2 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001294865.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon in its 5' coding region compared to variant 1. This variant represents translation initiation at an alternate start codon compared to variant 1; the 5'-most initiation codon, as used in variant 1, is associated with a truncated ORF that would render the transcript a candidate for nonsense-mediated decay (NMD). Leaky scanning may allow translation initiation at the alternate start codon to encode an isoform (2) that has a distinct and shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK001700, BC029379, BC040342, DA725217
    Consensus CDS
    CCDS76551.1
    UniProtKB/Swiss-Prot
    Q96QD8
    UniProtKB/TrEMBL
    Q8NHT5
    Conserved Domains (1) summary
    cl00456
    Location:5395
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
  2. NM_018976.5NP_061849.2  sodium-coupled neutral amino acid symporter 2 isoform 1

    See identical proteins and their annotated locations for NP_061849.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC025031, BC040342, DA725217
    Consensus CDS
    CCDS8749.1
    UniProtKB/Swiss-Prot
    Q96QD8, Q9P2G5
    UniProtKB/TrEMBL
    A0A024R0W3
    Related
    ENSP00000256689.5, ENST00000256689.10
    Conserved Domains (1) summary
    cl00456
    Location:69495
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    46358188..46372773 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047429019.1XP_047284975.1  sodium-coupled neutral amino acid transporter 2 isoform X1

    Related
    ENSP00000482873.1, ENST00000612232.1
  2. XM_047429020.1XP_047284976.1  sodium-coupled neutral amino acid transporter 2 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    46317747..46332332 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)