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Aliases for SLC13A2 Gene

Aliases for SLC13A2 Gene

  • Solute Carrier Family 13 Member 2 2 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. Diseases associated with SLC13A2 include Localized Osteosarcoma and Cervix Small Cell Carcinoma. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. 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

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

Genomics for SLC13A2 Gene

Regulatory Elements for SLC13A2 Gene

Enhancers for SLC13A2 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
GH17F027800 0.6 ENCODE 4.7 -672.6 -672582 1.1 HLF ZIC2 RAD21 RARA ATF3 CEBPA HNF4G SMAD4 SLC13A2 LGALS9 NOS2 PIR36820
GH17F028472 0.8 Ensembl ENCODE 0.8 +1.6 1566 3.7 ELF3 PLRG1 RAD21 RARA GATA2 ZNF366 SCRT2 THAP11 ZNF280D ZEB2 TWF1P1 SLC13A2 FOXN1
GH17F028470 0.8 Ensembl ENCODE 0.8 -2.1 -2091 1.8 GATA3 TAL1 MLLT1 TMEM199 RPS7P1 SLC13A2
GH17F028468 0.2 Ensembl 0.8 -4.6 -4593 0.2 MTA2 RNF2 ETV6 RPS7P1 SLC13A2
GH17F028479 0.6 ENCODE 0.4 +6.2 6185 0.2 SLC46A1 UNC119 PIGS SLC13A2 FOXN1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SLC13A2 on UCSC Golden Path with GeneCards custom track

Genomic Location for SLC13A2 Gene

Chromosome:
17
Start:
28,473,293 bp from pter
End:
28,497,781 bp from pter
Size:
24,489 bases
Orientation:
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:
    Q13183-S13A2_HUMAN
    Recommended name:
    Solute carrier family 13 member 2
    Protein Accession:
    Q13183
    Secondary Accessions:
    • B2RBI9
    • B4DPL1
    • E7ETH5
    • Q4VAR7

    Protein attributes for SLC13A2 Gene

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

    Alternative splice isoforms for SLC13A2 Gene

    UniProtKB/Swiss-Prot:

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

Protein Domains for SLC13A2 Gene

Graphical View of Domain Structure for InterPro Entry

Q13183

UniProtKB/Swiss-Prot:

S13A2_HUMAN :
  • Belongs to the SLC13A/DASS transporter (TC 2.A.47) family. NADC subfamily.
Family:
  • 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

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

Gene Ontology (GO) - Molecular Function for SLC13A2 Gene

GO ID Qualified GO term Evidence PubMed IDs
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

  • Taconic Biosciences Mouse Models for SLC13A2

miRNA for SLC13A2 Gene

Inhibitory RNA Products

Flow Cytometry 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

COMPARTMENTS
Jensen Localization Image for SLC13A2 Gene COMPARTMENTS Subcellular localization image for SLC13A2 gene
Compartment Confidence
extracellular 5
plasma membrane 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 IEA --
GO:0070062 extracellular exosome IDA 19056867
genes like me logo Genes that share ontologies with SLC13A2: view

Pathways & Interactions for SLC13A2 Gene

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

Interacting Proteins for SLC13A2 Gene

Gene Ontology (GO) - Biological Process for SLC13A2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport TAS 8967342
GO:0006811 ion transport IEA --
GO:0006814 sodium ion transport IEA --
GO:0006835 dicarboxylic acid transport IEA --
GO:0055085 transmembrane transport IEA --
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

(7) 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

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

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
sodium
  • Sodium
  • Sodium ion
7440-23-5
genes like me logo Genes that share compounds with SLC13A2: view

Transcripts for SLC13A2 Gene

Unigene Clusters for SLC13A2 Gene

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

Inhibitory RNA Products

Flow Cytometry 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
SP1:
SP2: - -
SP3: -
SP4: - - -

Relevant External Links for SLC13A2 Gene

GeneLoc Exon Structure for
SLC13A2
ECgene alternative splicing isoforms for
SLC13A2

Expression for SLC13A2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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, PaxDb, and MOPED for SLC13A2 Gene



Protein tissue co-expression partners for SLC13A2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLC13A2 Gene:

SLC13A2

SOURCE GeneReport for Unigene cluster for SLC13A2 Gene:

Hs.102307
genes like me logo Genes that share expression patterns with SLC13A2: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt 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
chimpanzee
(Pan troglodytes)
Mammalia SLC13A2 34 35
  • 99.04 (n)
dog
(Canis familiaris)
Mammalia SLC13A2 34 35
  • 84.41 (n)
rat
(Rattus norvegicus)
Mammalia Slc13a2 34
  • 80.99 (n)
cow
(Bos Taurus)
Mammalia SLC13A2 34 35
  • 80.57 (n)
mouse
(Mus musculus)
Mammalia Slc13a2 34 16 35
  • 80.54 (n)
oppossum
(Monodelphis domestica)
Mammalia SLC13A2 35
  • 70 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SLC13A2 35
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves SLC13A2 34 35
  • 65.44 (n)
lizard
(Anolis carolinensis)
Reptilia SLC13A2 35
  • 60 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slc13a2 34
  • 65.91 (n)
African clawed frog
(Xenopus laevis)
Amphibia nadc2-A-prov 34
zebrafish
(Danio rerio)
Actinopterygii slc13a2 34 35
  • 65.11 (n)
Dr.4271 34
fruit fly
(Drosophila melanogaster)
Insecta Indy 34 35
  • 53.51 (n)
Indy-2 36
  • 34 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007054 34
  • 53.41 (n)
worm
(Caenorhabditis elegans)
Secernentea nac-1 34 35
  • 48.95 (n)
F31F6.6 36
  • 38 (a)
nac-3 35
  • 38 (a)
ManyToMany
B0285.6 36 35
  • 35 (a)
R107.1 36
  • 32 (a)
nac-2 35
  • 31 (a)
ManyToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons TDT 34
  • 49.23 (n)
rice
(Oryza sativa)
Liliopsida Os09g0484900 34
  • 51.79 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 38 (a)
ManyToMany
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

ENSEMBL:
Gene Tree for SLC13A2 (if available)
TreeFam:
Gene Tree for SLC13A2 (if available)

Paralogs for SLC13A2 Gene

Paralogs for SLC13A2 Gene

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

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 Sequence Context AA Info Type
rs387907474 Uncertain significance 28,495,716(+) AGCTC(C/T)AGCCA nc-transcript-variant, reference, missense
rs387907475 Uncertain significance 28,495,672(+) TCAGA(A/G)TGGCT nc-transcript-variant, reference, synonymous-codon
rs111227982 -- 28,490,460(+) TTGCC(A/C/G)TCGAG nc-transcript-variant, reference, missense
rs111230784 -- 28,486,637(+) AGCTG(C/T)CAGTG intron-variant
rs111393712 -- 28,493,101(+) TGTCA(A/G)CACAA 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)

Relevant External Links for SLC13A2 Gene

Human Gene Mutation Database (HGMD)
SLC13A2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLC13A2

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

Disorders for SLC13A2 Gene

MalaCards: The human disease database

(7) MalaCards diseases for SLC13A2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
localized osteosarcoma
  • localized osteogenic sarcoma
cervix small cell carcinoma
  • small cell carcinoma of the cervix
cavernous sinus thrombosis
  • thrombosis of cavernous venous sinus
ovarian endodermal sinus tumor
  • endodermal sinus tumor of ovary
ovarian primitive germ cell tumor
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SLC13A2

Genetic Association Database (GAD)
SLC13A2
Human Genome Epidemiology (HuGE) Navigator
SLC13A2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLC13A2
genes like me logo Genes that share disorders with SLC13A2: view

No data available for 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. (Int. J. Urol. 2007) 3 4 22 46 64
  2. Molecular cloning and functional expression of a sodium-dicarboxylate cotransporter from human kidney. (PMID: 8967342) Pajor A.M. (Am. J. Physiol. 1996) 2 3 4 22 64
  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 S.S. … Holmes R.P. (Cytogenet. Cell Genet. 1999) 2 3 22 64
  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 Clin Pract 2010) 3 46 64
  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 A.M. (Biochemistry 2008) 3 22 64

Products for SLC13A2 Gene

Sources for SLC13A2 Gene

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