Gene Gene information from NCBI Gene database.
Entrez ID 6559
Gene name Solute carrier family 12 member 3
Gene symbol SLC12A3
Synonyms (NCBI Gene)
NCCNCCTTSC
Chromosome 16
Chromosome location 16q13
Summary This gene encodes a renal thiazide-sensitive sodium-chloride cotransporter that is important for electrolyte homeostasis. This cotransporter mediates sodium and chloride reabsorption in the distal convoluted tubule. Mutations in this gene cause Gitelman s
SNPs SNP information provided by dbSNP.
78
SNP ID Visualize variation Clinical significance Consequence
rs13306668 G>A,C,T Likely-pathogenic Missense variant, coding sequence variant
rs28936387 T>C Pathogenic Missense variant, coding sequence variant
rs28936388 C>T Pathogenic Missense variant, coding sequence variant
rs34803727 G>A Pathogenic, likely-pathogenic Missense variant, coding sequence variant
rs121909379 T>C Likely-pathogenic, pathogenic Coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
100
miRTarBase ID miRNA Experiments Reference
MIRT017508 hsa-miR-335-5p Microarray 18185580
MIRT708972 hsa-miR-4780 HITS-CLIP 19536157
MIRT708971 hsa-miR-6780b-3p HITS-CLIP 19536157
MIRT708970 hsa-miR-136-5p HITS-CLIP 19536157
MIRT708969 hsa-miR-4469 HITS-CLIP 19536157
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
40
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0005515 Function Protein binding IPI 22406640
GO:0005524 Function ATP binding IEA
GO:0005829 Component Cytosol IEA
GO:0005886 Component Plasma membrane IDA 22009145, 36370249
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
600968 10912 ENSG00000070915
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P55017
Protein name Solute carrier family 12 member 3 (Na-Cl cotransporter) (NCC) (Na-Cl symporter) (Thiazide-sensitive sodium-chloride cotransporter)
Protein function Electroneutral sodium and chloride ion cotransporter, which acts as a key mediator of sodium and chloride reabsorption in kidney distal convoluted tubules (PubMed:18270262, PubMed:21613606, PubMed:22009145, PubMed:36351028, PubMed:36792826). Als
PDB 7Y6I , 7YG0 , 7YG1 , 8FHN , 8FHO , 8FHP , 8FHQ , 8FHR , 8FHT
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF08403 AA_permease_N 45 116 Amino acid permease N-terminal Family
PF00324 AA_permease 141 647 Amino acid permease Family
PF03522 SLC12 655 810 Solute carrier family 12 Family
PF03522 SLC12 795 1020 Solute carrier family 12 Family
Tissue specificity TISSUE SPECIFICITY: Predominantly expressed in the kidney (at protein level) (PubMed:29993276, PubMed:8812482). Localizes to the distal convoluted tubules (at protein level) (PubMed:29993276). Not detected in normal aorta, but abundantly expressed in fatt
Sequence
MAELPTTETPGDATLCSGRFTISTLLSSDEPSPPAAYDSSHPSHLTHSSTFCMRTFGYNT
IDVVPTYEHYANSTQPGEPRKVRPTLADLHSFLKQEGRHLHALAFDSRPSHEMTDG
LVEG
EAGTSSEKNPEEPVRFGWVKGVMIRCMLNIWGVILYLRLPWITAQAGIVLTWIIILLSVT
VTSITGLSISAISTNGKVKSGGTYFLISRSLGPELGGSIGLIFAFANAVGVAMHTVGFAE
TVRDLLQEYGAPIVDPINDIRIIAVVSVTVLLAISLAGMEWESKAQVLFFLVIMVSFANY
LVGTLIPPSEDKASKGFFSYRADIFVQNLVPDWRGPDGTFFGMFSIFFPSATGILAGANI
SGDLKDPAIAIPKGTLMAIFWTTISYLAISATIGSCVVRDASGVLNDTVTPGWGACEGLA
CSYGWNFTECTQQHSCHYGLINYYQTMSMVSGFAPLITAGIFGATLSSALACLVSAAKVF
QCLCEDQLYPLIGFFGKGYGKNKEPVRGYLLAYAIAVAFIIIAELNTIAPIISNFFLCSY
ALINFSCFHASITNSPGWRPSFQYYNKWAALFGAIISVVIMFLLTWWAALIAIGVVLFLL
LYVIYKKPEVNWGSSVQAGSYNLALSYSVGLNEVEDHIKNYRPQCLV
LTGPPNFRPALVD
FVGTFTRNLSLMICGHVLIGPHKQRMPELQLIANGHTKWLNKRKIKAFYSDVIAEDLRRG
VQILMQAAGLGRMKPNILVVGFKKNWQSAHPATVEDYIGILHDAFDFNYGVCVMRMREGL
NVSKMMQAHINPVF
DPAEDGKEASARVDPKALVKEEQATTIFQSEQGKKTIDIYWLFDDG
GLTLLIPYLLGRKRRWSKCKIRVFVGGQINRMDQERKAIISLLSKFRLGFHEVHILPDIN
QNPRAEHTKRFEDMIAPFRLNDGFKDEATVNEMRRDCPWKISDEEITKNRVKSLRQVRLN
EIVLDYSRDAALIVITLPIGRKGKCPSSLYMAWLETLSQDLRPPVILIRGNQENVLTFYC

Q
Sequence length 1021
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Parathyroid hormone synthesis, secretion and action   Cation-coupled Chloride cotransporters
Defective SLC12A3 causes Gitelman syndrome (GS)
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
34
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Bartter syndrome Likely pathogenic; Pathogenic rs138977195, rs121909380, rs199974259, rs140012781, rs201555148, rs759377924, rs34803727, rs750710315, rs776210036, rs781209989, rs1451284628 RCV001328096
RCV001328221
RCV001328169
RCV001328101
RCV001328170
View all (6 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Cervical cancer Likely pathogenic; Pathogenic rs202114767 RCV005899615
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Familial aortopathy Pathogenic rs759377924 RCV004544962
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Familial hypokalemia-hypomagnesemia Likely pathogenic; Pathogenic rs777815715, rs1401379546, rs2055071588, rs150046661, rs781137708, rs200219778, rs755069436, rs748575829, rs2144723594, rs779215330, rs754576009, rs761692493, rs765609579, rs371443644, rs2144689577
View all (179 more)
RCV002286834
RCV001329193
RCV005015670
RCV001831367
RCV002504631
View all (199 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BARTTER DISEASE Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BREAST CANCER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BREAST CARCINOMA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Abdominal obesity metabolic syndrome Metabolic Syndrome BEFREE 15716982
★☆☆☆☆
Found in Text Mining only
Acute Cerebrovascular Accidents Stroke BEFREE 31352585
★☆☆☆☆
Found in Text Mining only
Acute leukemia Leukemia BEFREE 19250671, 19286253
★☆☆☆☆
Found in Text Mining only
Acute monocytic leukemia Monocytic Leukemia BEFREE 25476905, 31619031
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 11696455
★☆☆☆☆
Found in Text Mining only
Adenomatous Polyposis Coli Multiple polyposis syndrome BEFREE 15565817
★☆☆☆☆
Found in Text Mining only
Adult Fanconi syndrome Fanconi syndrome HPO_DG
★☆☆☆☆
Found in Text Mining only
Angiomyolipoma of kidney Angiomyolipoma Of Kidney BEFREE 18988705, 30036593, 31619031
★☆☆☆☆
Found in Text Mining only
Antiphospholipid Syndrome Antiphospholipid syndrome Pubtator 27803420 Associate
★☆☆☆☆
Found in Text Mining only
Arteriosclerosis Arteriosclerosis BEFREE 17468934
★☆☆☆☆
Found in Text Mining only