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    SLC25A13 solute carrier family 25 (aspartate/glutamate carrier), member 13 [ Homo sapiens ]

    Gene ID: 10165, updated on 20-May-2012

    Summary

    Official Symbol
    SLC25A13provided by HGNC
    Official Full Name
    solute carrier family 25 (aspartate/glutamate carrier), member 13provided by HGNC
    Primary source
    HGNC:10983
    See related
    Ensembl:ENSG00000004864; HPRD:04837; MIM:603859; Vega:OTTHUMG00000023074
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CTLN2; CITRIN; ARALAR2
    Summary
    This gene is a member of the mitochondrial carrier family. The encoded protein contains four EF-hand Ca(2+) binding motifs in the N-terminal domain, and localizes to mitochondria. The protein catalyzes the exchange of aspartate for glutamate and a proton across the inner mitochondrial membrane, and is stimulated by calcium on the external side of the inner mitochondrial membrane. Mutations in this gene result in citrullinemia, type II. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2009]

    Genomic context

    Location :
    7q21.3
    Sequence :
    Chromosome: 7; NC_000007.13 (95749532..95951459, complement)
    See SLC25A13 in Epigenomics, MapViewer

    Chromosome 7 - NC_000007.13Genomic Context describing neighboring genes Neighboring gene pyruvate dehydrogenase kinase, isozyme 4 Neighboring gene dynein, cytoplasmic 1, intermediate chain 1 Neighboring gene cytochrome c, somatic pseudogene 18 Neighboring gene microRNA 591 Neighboring gene ribosomal protein L21 pseudogene 74 Neighboring gene putative uncharacterized protein FLJ42280 Neighboring gene uncharacterized LOC100506136

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Phenotypes

    Citrullinemia, adult-onset type II

    Summary from GeneReviews: Go to GeneReviews

    Disease Characteristics
    Citrin deficiency can manifest in newborns as neonatal intrahepatic cholestasis caused by citrin deficiency (NICCD), in older children as failure to thrive and dyslipidemia caused by citrin deficiency (FTTDCD), and in adults as recurrent hyperammonemia with neuropsychiatric symptoms in citrullinemia type II (CTLN2). Often citrin deficiency is characterized by fondness for protein-rich and/or lipid-rich foods and aversion to carbohydrate-rich foods. NICCD: Children younger than age one year have growth retardation with transient intrahepatic cholestasis, hepatomegaly, diffuse fatty liver and parenchymal cellular infiltration associated with hepatic fibrosis, variable liver dysfunction, hypoproteinemia, decreased coagulation factors, hemolytic anemia, and/or hypoglycemia. Although NICCD is generally not severe and symptoms often resolve by age one year with appropriate treatment, some infants succumb to infection and liver cirrhosis and others require liver transplantation. FTTDCD: Around age one to two years, many children with citrin deficiency develop the food preferences mentioned. Some have growth retardation, hypoglycemia, and fatigue as well as hyperlipidemia, pancreatitis, fatty liver, and hepatoma. One or more decades later, some individuals with NICCD or FTTDCD develop CTLN2. CTLN2: Onset is sudden and usually between ages 11 and 79 years. Manifestations are recurrent hyperammonemia with neuropsychiatric symptoms including nocturnal delirium, aggression, irritability, hyperactivity, delusions, disorientation, restlessness, drowsiness, loss of memory, flapping tremor, convulsive seizures, and coma; death can result from brain edema. Symptoms are often provoked by alcohol and sugar intake, medication, and/or surgery. Affected individuals may or may not have a prior history of NICCD or FTTDCD.
    Diagnosis Testing
    The diagnosis of citrin deficiency is suspected from clinical and biochemical findings (in general, increased blood or plasma concentration of ammonia, plasma or serum concentration of citrulline and arginine, plasma or serum threonine-to-serine ratio, and serum concentration of pancreatic secretory trypsin inhibitor [PSTI]). Identification of biallelic mutations in SLC25A13, the only gene in which mutations are known to cause citrin deficiency, confirms the diagnosis.
    Genetic Counseling
    Citrin deficiency is inherited in an autosomal recessive manner. When both parents are carriers, each sib of an affected individual has, at conception, a 25% chance of being affected, a 50% chance of being an asymptomatic carrier, and a 25% chance of being unaffected and not a carrier. When one parent is a carrier and the other parent has two mutated SLC25A13 alleles, each sib of an affected individual has, at conception, a 50% chance of being affected and a 50% chance of being an asymptomatic carrier. Carrier testing for at-risk relatives and prenatal testing for pregnancies at increased risk are possible if the disease-causing mutations in the family are known.
    References

    Citrullinemia, type II, neonatal-onset

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    BioGRID:115467 BioGRID:118855 BABAM1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:114946 BRE    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:128178 EIF2C4    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:109622 ICT1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:110694 MYC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:122479 SLX1B    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:112497 SUMO2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115467 BioGRID:131884 USP50    BioGRID  PubMed Affinity Capture-MS 

    General gene information

    Markers

    Homology

    Pathways from BioSystems

    • Gluconeogenesis, organism-specific biosystem (from REACTOME)
      Gluconeogenesis, organism-specific biosystemThe reactions of gluconeogenesis convert mitochondrial pyruvate to cytosolic glucose 6-phosphate which in turn can be hydrolyzed to glucose and exported from the cell. Gluconeogenesis is confined to ...
    • Glucose metabolism, organism-specific biosystem (from REACTOME)
      Glucose metabolism, organism-specific biosystemGlucose is the major form in which dietary sugars are made available to cells of the human body. Its breakdown is a major source of energy for all cells, and is essential for the brain and red blood ...
    • Metabolism, organism-specific biosystem (from REACTOME)
      Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
    • Metabolism of carbohydrates, organism-specific biosystem (from REACTOME)
      Metabolism of carbohydrates, organism-specific biosystemThese pathways together are responsible for: 1) the extraction of energy and carbon skeletons for biosyntheses from dietary sugars and related molecules; 2) the short-term storage of glucose in the b...
    • Metabolism of proteins, organism-specific biosystem (from REACTOME)
      Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
    • Mitochondrial Protein Import, organism-specific biosystem (from REACTOME)
      Mitochondrial Protein Import, organism-specific biosystemA human mitochondrion contains about 1500 proteins, more than 99% of which are encoded in the nucleus, synthesized in the cytosol and imported into the mitochondrion. Proteins are targeted to four lo...

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    L-aspartate transmembrane transporter activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    L-glutamate transmembrane transporter activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    L-glutamate transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    binding IEA
    Inferred from Electronic Annotation
    more info
     
    calcium ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    transporter activity NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    ATP biosynthetic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    L-amino acid transport IEA
    Inferred from Electronic Annotation
    more info
     
    L-glutamate transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    amino acid transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
     
    aspartate transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    aspartate transport IEA
    Inferred from Electronic Annotation
    more info
     
    carbohydrate metabolic process TAS
    Traceable Author Statement
    more info
     
    cellular respiration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    gluconeogenesis TAS
    Traceable Author Statement
    more info
     
    glucose metabolic process TAS
    Traceable Author Statement
    more info
     
    malate-aspartate shuttle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    malate-aspartate shuttle IEA
    Inferred from Electronic Annotation
    more info
     
    response to calcium ion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    small molecule metabolic process TAS
    Traceable Author Statement
    more info
     
    transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
     
    transport NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    integral to membrane IEA
    Inferred from Electronic Annotation
    more info
     
    integral to plasma membrane NAS
    Non-traceable Author Statement
    more info
    PubMed 
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    mitochondrial inner membrane IEA
    Inferred from Electronic Annotation
    more info
     
    mitochondrial inner membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    mitochondrial inner membrane TAS
    Traceable Author Statement
    more info
     
    mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    calcium-binding mitochondrial carrier protein Aralar2
    Names
    calcium-binding mitochondrial carrier protein Aralar2
    mitochondrial aspartate glutamate carrier 2
    solute carrier family 25, member 13 (citrin)

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_012247.1 RefSeqGene

      Range
      5001..206928
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001160210.1NP_001153682.1  calcium-binding mitochondrial carrier protein Aralar2 isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AJ496569, DA118296, DA696723
      Consensus CDS
      CCDS55130.1
      Related
      ENSP00000400101, ENST00000416240
      Conserved Domains (3) summary
      pfam00153
      Location:517612
      Blast Score: 295
      Mito_carr; Mitochondrial carrier protein
      pfam13499
      Location:2981
      Blast Score: 86
      EF_hand_5; EF-hand domain pair
      cl08302
      Location:1981
      Blast Score: 93
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    2. NM_014251.2NP_055066.1  calcium-binding mitochondrial carrier protein Aralar2 isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The resulting isoform (2) lacks one-aa, compared to isoform 1.
      Source sequence(s)
      AC004458, BC006566, DA118296
      Consensus CDS
      CCDS5645.1
      UniProtKB/Swiss-Prot
      Q9UJS0
      Related
      ENSP00000265631, OTTHUMP00000024692, ENST00000265631, OTTHUMT00000059395
      Conserved Domains (3) summary
      pfam00153
      Location:516611
      Blast Score: 295
      Mito_carr; Mitochondrial carrier protein
      pfam13499
      Location:2981
      Blast Score: 86
      EF_hand_5; EF-hand domain pair
      cl08302
      Location:1981
      Blast Score: 93
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

    RNA

    1. NR_027662.1 RNA Sequence

      Description
      Transcript Variant: This variant (3) lacks an alternate exon in the 5' coding region resulting in a frameshift, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK294629, BC006566, DA118296, DA696723

    RefSeqs of Annotated Genomes: Build 37.3

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

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000007.13 Reference GRCh37.p5 Primary Assembly

      Range
      95749532..95951459, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000139.1 Alternate HuRef

      Range
      90357333..90559663, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CRA_TCAGchr7v2

    Genomic

    1. AC_000068.1 Alternate CRA_TCAGchr7v2

      Range
      95078578..95280528, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic AC002450.1 AAB67049.1
    genomic AC002540.1 AAB70112.1
    genomic AC004458.1 AAS07441.1
    genomic AC084368.5 AAS07513.1
    genomic AC096775.5 AAS07527.1
    genomic CH236949.1 (1547215..1749111) None
    genomic CH471091.2 EAW76748.1
      EAW76749.1
    mRNA AF118838.1 AAD38501.1
    mRNA AJ496569.1 CAD43091.1
    mRNA AK000766.1 None
    mRNA AK025227.1 None
    mRNA AK025779.1 None
    mRNA AK222864.1 BAD96584.1
    mRNA AK294629.1 BAH11828.1
    mRNA BC006566.2 AAH06566.1
    mRNA DA118296.1 None
    mRNA DA696723.1 None
    mRNA Y17571.1 CAB62206.1
    other-genetic DQ892851.2 ABM83777.1
    other-genetic DQ896098.2 ABM87097.1
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q53GR7 GenPept UniProtKB/TrEMBL:Q53GR7
    Q75KX8 GenPept UniProtKB/TrEMBL:Q75KX8
    Q75M55 GenPept UniProtKB/TrEMBL:Q75M55
    Q9UJS0.2 GenPept UniProtKB/Swiss-Prot:Q9UJS0

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