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Aliases for SLC13A2 Gene

Aliases for SLC13A2 Gene

  • Solute Carrier Family 13 Member 2 2 3 3 5
  • Solute Carrier Family 13 (Sodium-Dependent Dicarboxylate Transporter), Member 2 2 3
  • Renal Sodium/Dicarboxylate Cotransporter 3 4
  • Na(+)/Dicarboxylate Cotransporter 1 3 4
  • NaDC-1 3 4
  • NADC1 3 4
  • SDCT1 3 4
  • Na(+)-Coupled Citrate Transporter 3
  • NaCT 3

External Ids for SLC13A2 Gene

Previous GeneCards Identifiers for SLC13A2 Gene

  • GC17P026645
  • GC17P028700
  • GC17P026652
  • GC17P026946
  • GC17P023824
  • GC17P026800
  • GC17P023009

Summaries for SLC13A2 Gene

Entrez Gene Summary for SLC13A2 Gene

  • The protein encoded by this gene is a sodium-coupled citrate transporter that is regulated by the chaperone activity of cyclophilin b. The encoded protein may play a role in the formation of kidney stones. [provided by RefSeq, Oct 2016]

GeneCards Summary for SLC13A2 Gene

SLC13A2 (Solute Carrier Family 13 Member 2) is a Protein Coding gene. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. Gene Ontology (GO) annotations related to this gene include transporter activity and low-affinity sodium:dicarboxylate symporter activity. An important paralog of this gene is SLC13A5.

UniProtKB/Swiss-Prot for SLC13A2 Gene

  • Cotransport of sodium ions and dicarboxylates such as succinate and citrate.

Gene Wiki entry for SLC13A2 Gene

Additional gene information for SLC13A2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLC13A2 Gene

Genomics for SLC13A2 Gene

GeneHancer (GH) Regulatory Elements for SLC13A2 Gene

Promoters and enhancers for SLC13A2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J028472 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 650.7 +1.6 1565 3.7 ELF3 FOXA2 RAD21 RARA ZNF366 SCRT2 THAP11 ZEB2 ELF1 NFIL3 SLC13A2 FOXN1 ENSG00000258472
GH17J027800 Promoter/Enhancer 1.2 EPDnew ENCODE 4.7 -672.6 -672581 1.1 FOXA2 MAX ZIC2 RAD21 RARA YY1 HNF4G RXRA HLF FOXA1 NOS2 SLC13A2 LGALS9 PIR36820 ENSG00000266202
GH17J028470 Enhancer 0.8 ENCODE dbSUPER 0.7 -2.1 -2091 1.8 TEAD4 TAL1 CEBPB CBFA2T3 CEBPG ZNF335 GATA3 ATF4 MLLT1 ZBTB17 TMEM199 RPS7P1 SLC13A2 ENSG00000258472
GH17J028467 Promoter 0.8 Ensembl 0.4 -5.3 -5292 0.4 SMARCA4 RNF2 ZFP36 CEBPG BMI1 GC17P028468 GC17P028469 RPS7P1 GC17P028470 TMEM199 SLC13A2 ENSG00000258472
GH17J028500 Enhancer 1 FANTOM5 ENCODE 0.3 +27.8 27837 0.4 BACH1 MAX EBF1 ZIC2 RELA FOXK2 POLR2A EED ZNF207 ZNF687 UNC119 PIGS SPAG5-AS1 SGK494 SLC46A1 KIAA0100 FOXN1 SPAG5 SEBOX TMEM97
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLC13A2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLC13A2 gene promoter:
  • AP-4
  • STAT5A
  • GATA-3
  • MyoD
  • Max1
  • c-Myc
  • Tal-1
  • E47
  • LUN-1

Genomic Locations for SLC13A2 Gene

Genomic Locations for SLC13A2 Gene
24,489 bases
Plus strand
24,489 bases
Plus strand

Genomic View for SLC13A2 Gene

Genes around SLC13A2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLC13A2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLC13A2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC13A2 Gene

Proteins for SLC13A2 Gene

  • Protein details for SLC13A2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Solute carrier family 13 member 2
    Protein Accession:
    Secondary Accessions:
    • B2RBI9
    • B4DPL1
    • E7ETH5
    • Q4VAR7

    Protein attributes for SLC13A2 Gene

    592 amino acids
    Molecular mass:
    64410 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SLC13A2 Gene


neXtProt entry for SLC13A2 Gene

Post-translational modifications for SLC13A2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SLC13A2 Gene

Domains & Families for SLC13A2 Gene

Gene Families for SLC13A2 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transporters

Protein Domains for SLC13A2 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the SLC13A/DASS transporter (TC 2.A.47) family. NADC subfamily.
  • Belongs to the SLC13A/DASS transporter (TC 2.A.47) family. NADC subfamily.
genes like me logo Genes that share domains with SLC13A2: view

Function for SLC13A2 Gene

Molecular function for SLC13A2 Gene

UniProtKB/Swiss-Prot Function:
Cotransport of sodium ions and dicarboxylates such as succinate and citrate.
GENATLAS Biochemistry:
solute carrier family 13,member A2,sodium dependent dicarboxylate transporter,located in proximal tubule,kidney

Phenotypes From GWAS Catalog for SLC13A2 Gene

Gene Ontology (GO) - Molecular Function for SLC13A2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005215 transporter activity IBA --
GO:0015293 symporter activity IEA --
GO:0015361 low-affinity sodium:dicarboxylate symporter activity TAS --
genes like me logo Genes that share ontologies with SLC13A2: view
genes like me logo Genes that share phenotypes with SLC13A2: view

Animal Models for SLC13A2 Gene

MGI Knock Outs for SLC13A2:

Animal Model Products

CRISPR Products

miRNA for SLC13A2 Gene

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLC13A2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SLC13A2 Gene

Localization for SLC13A2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC13A2 Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SLC13A2 gene
Compartment Confidence
plasma membrane 5
extracellular 5

Gene Ontology (GO) - Cellular Components for SLC13A2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 8967342
GO:0016020 membrane IEA,TAS 8967342
GO:0016021 integral component of membrane IBA,IEA --
GO:0070062 extracellular exosome HDA 19056867
genes like me logo Genes that share ontologies with SLC13A2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SLC13A2 Gene

Pathways & Interactions for SLC13A2 Gene

genes like me logo Genes that share pathways with SLC13A2: view

Gene Ontology (GO) - Biological Process for SLC13A2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006811 ion transport IEA --
GO:0006814 sodium ion transport IEA --
GO:0006835 dicarboxylic acid transport IEA --
GO:0055085 transmembrane transport IEA --
GO:0098656 anion transmembrane transport IBA --
genes like me logo Genes that share ontologies with SLC13A2: view

No data available for SIGNOR curated interactions for SLC13A2 Gene

Drugs & Compounds for SLC13A2 Gene

(8) Drugs for SLC13A2 Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Succinic acid Approved Nutra Full agonist, Agonist, Target 0
Sodium Citrate Approved, Investigational Pharma Transporter, substrate 0

(3) Additional Compounds for SLC13A2 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • Na(+)
  • Na+
  • SODIUM ion
genes like me logo Genes that share compounds with SLC13A2: view

Transcripts for SLC13A2 Gene

mRNA/cDNA for SLC13A2 Gene

(11) REFSEQ mRNAs :
(9) Additional mRNA sequences :
(16) Selected AceView cDNA sequences:
(7) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SLC13A2 Gene

Solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLC13A2

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC13A2 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b · 14c
SP2: - -
SP3: -
SP4: - - -

Relevant External Links for SLC13A2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SLC13A2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLC13A2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SLC13A2 Gene

This gene is overexpressed in Small Intestine - Terminal Ileum (x24.4), Kidney - Cortex (x12.4), Minor Salivary Gland (x6.3), and Colon - Transverse (x4.2).

Protein differential expression in normal tissues from HIPED for SLC13A2 Gene

This gene is overexpressed in Urine (56.5) and Liver (7.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SLC13A2 Gene

Protein tissue co-expression partners for SLC13A2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLC13A2 Gene:


SOURCE GeneReport for Unigene cluster for SLC13A2 Gene:


Evidence on tissue expression from TISSUES for SLC13A2 Gene

  • Kidney(4.7)
  • Intestine(2.1)
genes like me logo Genes that share expression patterns with SLC13A2: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLC13A2 Gene

Orthologs for SLC13A2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SLC13A2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SLC13A2 34 33
  • 99.04 (n)
(Canis familiaris)
Mammalia SLC13A2 34 33
  • 84.41 (n)
(Rattus norvegicus)
Mammalia Slc13a2 33
  • 80.99 (n)
(Bos Taurus)
Mammalia SLC13A2 34 33
  • 80.57 (n)
(Mus musculus)
Mammalia Slc13a2 16 34 33
  • 80.54 (n)
(Monodelphis domestica)
Mammalia SLC13A2 34
  • 70 (a)
(Ornithorhynchus anatinus)
Mammalia SLC13A2 34
  • 68 (a)
(Gallus gallus)
Aves SLC13A2 34 33
  • 65.44 (n)
(Anolis carolinensis)
Reptilia SLC13A2 34
  • 60 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia slc13a2 33
  • 65.91 (n)
African clawed frog
(Xenopus laevis)
Amphibia nadc2-A-prov 33
(Danio rerio)
Actinopterygii slc13a2 34 33
  • 65.11 (n)
Dr.4271 33
fruit fly
(Drosophila melanogaster)
Insecta Indy 34 33
  • 53.51 (n)
Indy-2 35
  • 34 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007054 33
  • 53.41 (n)
(Caenorhabditis elegans)
Secernentea nac-1 34 33
  • 48.95 (n)
nac-3 34
  • 38 (a)
F31F6.6 35
  • 38 (a)
B0285.6 34 35
  • 34 (a)
R107.1 35
  • 32 (a)
nac-2 34
  • 31 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons TDT 33
  • 49.23 (n)
(Oryza sativa)
Liliopsida Os09g0484900 33
  • 51.79 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 38 (a)
Species where no ortholog for SLC13A2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SLC13A2 Gene

Gene Tree for SLC13A2 (if available)
Gene Tree for SLC13A2 (if available)
Evolutionary constrained regions (ECRs) for SLC13A2: view image

Paralogs for SLC13A2 Gene

Paralogs for SLC13A2 Gene

(5) SIMAP similar genes for SLC13A2 Gene using alignment to 7 proteins:

  • S13A2_HUMAN
  • G3V1L2_HUMAN
  • J3QR70_HUMAN
  • Q8IV67_HUMAN
genes like me logo Genes that share paralogs with SLC13A2: view

Variants for SLC13A2 Gene

Sequence variations from dbSNP and Humsavar for SLC13A2 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs387907474 uncertain-significance, not provided 28,495,716(+) C/A/T coding_sequence_variant, genic_downstream_transcript_variant, missense_variant, non_coding_transcript_variant
rs387907475 uncertain-significance, not provided 28,495,672(+) G/A coding_sequence_variant, genic_downstream_transcript_variant, non_coding_transcript_variant, synonymous_variant
rs1000147642 -- 28,483,054(+) C/A/T intron_variant
rs1000381337 -- 28,494,864(+) C/T downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant
rs1000405952 -- 28,494,655(+) T/C downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SLC13A2 Gene

Variant ID Type Subtype PubMed ID
nsv1064087 CNV gain 25217958
nsv1064958 CNV loss 25217958
nsv574653 CNV gain 21841781

Variation tolerance for SLC13A2 Gene

Residual Variation Intolerance Score: 29.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.20; 92.41% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLC13A2 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLC13A2 Gene

Disorders for SLC13A2 Gene

Additional Disease Information for SLC13A2

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SLC13A2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLC13A2 Gene

Publications for SLC13A2 Gene

  1. Associations between renal sodium-citrate cotransporter (hNaDC-1) gene polymorphism and urinary citrate excretion in recurrent renal calcium stone formers and normal controls. (PMID: 17470169) Okamoto N … Kitamura T (International journal of urology : official journal of the Japanese Urological Association 2007) 3 4 22 44 58
  2. Molecular cloning and functional expression of a sodium-dicarboxylate cotransporter from human kidney. (PMID: 8967342) Pajor AM (The American journal of physiology 1996) 2 3 4 22 58
  3. Assignment of the sodium-dependent dicarboxylate transporter gene (SLC13A2 alias NaDC-1) to human chromosome region 17p11.1-->q11.1 by radiation hybrid mapping and fluorescence in situ hybridization. (PMID: 10343111) Mann SS … Holmes RP (Cytogenetics and cell genetics 1999) 2 3 22 58
  4. L-type voltage-dependent calcium channel alpha subunit 1C is a novel candidate gene associated with secondary hyperparathyroidism: an application of haplotype-based analysis for multiple linked single nucleotide polymorphisms. (PMID: 20424473) Yokoyama K … Hosoya T (Nephron. Clinical practice 2010) 3 44 58
  5. Threonine-509 is a determinant of apparent affinity for both substrate and cations in the human Na+/dicarboxylate cotransporter. (PMID: 18161988) Weerachayaphorn J … Pajor AM (Biochemistry 2008) 3 22 58

Products for SLC13A2 Gene

Sources for SLC13A2 Gene

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