LOCUS       NM_003984               2360 bp    mRNA    linear   PRI 07-APR-2024
DEFINITION  Homo sapiens solute carrier family 13 member 2 (SLC13A2),
            transcript variant 2, mRNA.
ACCESSION   NM_003984
VERSION     NM_003984.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2360)
  AUTHORS   Chi,X., Chen,Y., Li,Y., Dai,L., Zhang,Y., Shen,Y., Chen,Y., Shi,T.,
            Yang,H., Wang,Z. and Yan,R.
  TITLE     Cryo-EM structures of the human NaS1 and NaDC1 transporters
            revealed the elevator transport and allosteric regulation mechanism
  JOURNAL   Sci Adv 10 (13), eadl3685 (2024)
   PUBMED   38552027
  REMARK    GeneRIF: Cryo-EM structures of the human NaS1 and NaDC1
            transporters revealed the elevator transport and allosteric
            regulation mechanism.
REFERENCE   2  (bases 1 to 2360)
  AUTHORS   Yang,X., Yao,S., An,J., Jin,H., Wang,H. and Tuo,B.
  TITLE     SLC26A6 and NADC-1: Future direction of nephrolithiasis and
            calculus-related hypertension research (Review)
  JOURNAL   Mol Med Rep 24 (5) (2021)
   PUBMED   34458928
  REMARK    GeneRIF: SLC26A6 and NADC1: Future direction of nephrolithiasis and
            calculusrelated hypertension research (Review).
            Review article
REFERENCE   3  (bases 1 to 2360)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   4  (bases 1 to 2360)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   5  (bases 1 to 2360)
  AUTHORS   Udomsilp,P., Saepoo,S., Ittiwut,R., Shotelersuk,V.,
            Dissayabutra,T., Boonla,C. and Tosukhowong,P.
  TITLE     rs11567842 SNP in SLC13A2 gene associates with hypocitraturia in
            Thai patients with nephrolithiasis
  JOURNAL   Genes Genomics 40 (9), 965-972 (2018)
   PUBMED   30155711
  REMARK    GeneRIF: Homozygous GG of rs11567842 SNP in NaDC-1 gene was a
            protective genotype for hypocitraturia in kidney stone patients
REFERENCE   6  (bases 1 to 2360)
  AUTHORS   Bai,X., Chen,X., Fen,Z., Wu,D., Hou,K., Cheng,G. and Peng,L.
  TITLE     Expression of EGFP/SDCT1 fusion protein, subcellular localization
            signal analysis, tissue distribution and electrophysiological
            function study
  JOURNAL   Sci China C Life Sci 47 (6), 530-539 (2004)
   PUBMED   15620109
  REMARK    GeneRIF: Data show that the sodium-dependent dicarboxylate
            co-transporter protein 1 is located in renal proximal tubule
            lumenal membranes, and that the C-terminal sequence is required for
            delivery and targeting and may contain the signal sequence.
REFERENCE   7  (bases 1 to 2360)
  AUTHORS   Inoue,K., Zhuang,L. and Ganapathy,V.
  TITLE     Human Na+ -coupled citrate transporter: primary structure, genomic
            organization, and transport function
  JOURNAL   Biochem Biophys Res Commun 299 (3), 465-471 (2002)
   PUBMED   12445824
  REMARK    GeneRIF: This paper describes the cloning and functional
            characterization of the human Na(+)-coupled citrate transporter
            (NaCT).
REFERENCE   8  (bases 1 to 2360)
  AUTHORS   Yao,X. and Pajor,A.M.
  TITLE     The transport properties of the human renal Na(+)- dicarboxylate
            cotransporter under voltage-clamp conditions
  JOURNAL   Am J Physiol Renal Physiol 279 (1), F54-F64 (2000)
   PUBMED   10894787
REFERENCE   9  (bases 1 to 2360)
  AUTHORS   Mann,S.S., Hart,T.C., Pettenati,M.J., von Kap-herr,C. and
            Holmes,R.P.
  TITLE     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
  JOURNAL   Cytogenet Cell Genet 84 (1-2), 89-90 (1999)
   PUBMED   10343111
REFERENCE   10 (bases 1 to 2360)
  AUTHORS   Pajor,A.M.
  TITLE     Molecular cloning and functional expression of a
            sodium-dicarboxylate cotransporter from human kidney
  JOURNAL   Am J Physiol 270 (4 Pt 2), F642-F648 (1996)
   PUBMED   8967342
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC015917.30, U26209.1,
            DB320886.1 and AW024214.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_003984.3.
            
            Summary: 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].
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the internal coding region compared to variant 1.
            This results in a shorter isoform (b) compared to isoform a.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: U26209.1, BC096277.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA1968832
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000314669.10/ ENSP00000316202.6
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2                 AC015917.30        39357-39358         c
            3-1948              U26209.1           2-1947
            1949-2357           DB320886.1         1-409               c
            2358-2360           AW024214.1         27-29               c
FEATURES             Location/Qualifiers
     source          1..2360
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q11.2"
     gene            1..2360
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /note="solute carrier family 13 member 2"
                     /db_xref="GeneID:9058"
                     /db_xref="HGNC:HGNC:10917"
                     /db_xref="MIM:604148"
     exon            1..171
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     CDS             70..1848
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /note="isoform b is encoded by transcript variant 2; renal
                     sodium/dicarboxylate cotransporter; Na(+)/dicarboxylate
                     cotransporter 1; Na(+)-coupled citrate transporter; solute
                     carrier family 13 (sodium-dependent dicarboxylate
                     transporter), member 2"
                     /codon_start=1
                     /product="solute carrier family 13 member 2 isoform b"
                     /protein_id="NP_003975.1"
                     /db_xref="CCDS:CCDS11231.1"
                     /db_xref="GeneID:9058"
                     /db_xref="HGNC:HGNC:10917"
                     /db_xref="MIM:604148"
                     /translation="MATCWQALWAYRSYLIVFFVPILLLPLPILVPSKEAYCAYAIIL
                     MALFWCTEALPLAVTALFPLILFPMMGIVDASEVAVEYLKDSNLLFFGGLLVAIAVEH
                     WNLHKRIALRVLLIVGVRPAPLILGFMLVTAFLSMWISNTATSAMMVPIAHAVLDQLH
                     SSQASSNVEEGSNNPTFELQEPSPQKEVTKLDNGQALPVTSASSEGRAHLSQKHLHLT
                     QCMSLCVCYSASIGGIATLTGTAPNLVLQGQINSLFPQNGNVVNFASWFSFAFPTMVI
                     LLLLAWLWLQILFLGFNFRKNFGIGEKMQEQQQAAYCVIQTEHRLLGPMTFAEKAISI
                     LFVILVLLWFTREPGFFLGWGNLAFPNAKGESMVSDGTVAIFIGIIMFIIPSKFPGLT
                     QDPENPGKLKAPLGLLDWKTVNQKMPWNIVLLLGGGYALAKGSERSGLSEWLGNKLTP
                     LQSVPAPAIAIILSLLVATFTECTSNVATTTIFLPILASMAQAICLHPLYVMLPCTLA
                     TSLAFMLPVATPPNAIVFSFGDLKVLDMARAGFLLNIIGVLIIALAINSWGIPLFSLH
                     SFPSWAQSNTTAQCLPSLANTTTPSP"
     exon            172..300
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            301..437
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            438..643
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            644..824
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            825..947
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            948..1166
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            1167..1255
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            1256..1377
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            1378..1539
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            1540..1677
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     exon            1678..2360
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2340..2345
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /note="hexamer: ATTAAA"
     polyA_site      2360
                     /gene="SLC13A2"
                     /gene_synonym="NaCT; NaDC-1; NADC1; SDCT1"
                     /note="major polyA site"
ORIGIN      
        1 gcatctttgg tccttctgtt acccagctcc tggaggcagt ggctgtagca gcccttgctg
       61 ctccacacca tggccacctg ctggcaggcc ctgtgggcct atcgctccta cctgatcgtg
      121 ttcttcgtgc ccattctcct gctgcctctg cccatcctcg tccccagtaa ggaggcctac
      181 tgcgcgtatg ccatcatcct catggcgctc ttctggtgca ctgaggccct gcccctggcc
      241 gtcactgccc tcttcccctt aatcctgttc cctatgatgg gcatcgtgga tgcctctgag
      301 gttgccgtcg agtatcttaa ggactccaac ctcctgttct tcggggggct gctggtggcc
      361 atcgcggtgg aacactggaa cctgcataaa cgcatcgccc tccgtgtcct cctcatcgtt
      421 ggggtgcggc ctgccccgct aatcctgggc ttcatgctgg tcacggcctt cctgtccatg
      481 tggatcagca acacggccac ctcagccatg atggtgccca tcgcacatgc cgtcctggac
      541 cagctgcaca gctcgcaagc cagcagcaac gtcgaggagg gcagcaacaa ccccaccttc
      601 gagctccagg aaccaagtcc ccagaaggag gtgaccaagc ttgataatgg gcaggccctc
      661 cctgtcacgt ctgcctcttc ggaggggagg gcacatctca gccagaagca tctccacctc
      721 acccagtgca tgagcctgtg cgtgtgctac tccgccagca tcgggggcat cgccacgctg
      781 actggcaccg cacccaacct ggtgctgcaa ggccagatca actcgctctt cccccaaaac
      841 ggcaacgtgg tgaacttcgc ctcctggttc agcttcgcct tccccaccat ggtcatcttg
      901 ctgctgctgg cctggttgtg gctgcagatc ctcttcctgg gcttcaactt ccggaagaac
      961 tttggcattg gggaaaagat gcaggagcaa cagcaggcag cctactgcgt catccagacc
     1021 gagcacaggc tgctgggccc catgaccttt gcagaaaagg ccatcagcat cctattcgtc
     1081 atcctggtgc tgctctggtt cacccgggag ccgggctttt ttcttggctg gggcaatttg
     1141 gcttttccca atgccaaggg ggagagcatg gtgtccgatg ggacagtggc catcttcatc
     1201 ggcataatta tgttcatcat accctccaag ttcccagggc tgacccagga cccagaaaac
     1261 ccagggaagc tgaaggcccc tcttggcctc ctcgactgga agacggtgaa ccagaagatg
     1321 ccgtggaata tcgtgttatt gctgggtggt ggctatgccc tggccaaggg cagtgagcga
     1381 tcgggcctgt cagagtggct gggaaacaag ctgaccccac tgcagagtgt gccagctcca
     1441 gccattgcca tcatcctctc cctcctggtg gccaccttca ccgagtgcac tagcaacgtg
     1501 gccaccacta cgatcttcct gcccatccta gcctccatgg cccaggccat ctgcctccac
     1561 cctctctacg tcatgctccc ctgcactctg gccacctccc tggccttcat gttgcctgtg
     1621 gccaccccgc ccaatgccat cgtcttctct ttcggggacc tcaaagtgtt ggatatggcc
     1681 cgggcaggat tcctcctcaa catcattgga gtcctgatca tcgcactggc catcaacagc
     1741 tggggcatcc ccctcttcag cctgcactct ttcccctcct gggcacagtc caacaccaca
     1801 gcccagtgcc tgccaagcct ggccaacacc accacaccaa gcccctaggc tggggcacag
     1861 cctggccatg cccaggaaga cccaccccat tcccactcct ctgagcccgg aggggacacc
     1921 ccaagctcca agctccaagc tccaggccaa aggctgaaag gcacgtgtgt acataatctc
     1981 ttgcgtgtct gtaaggaagg ggtgtatgct cagtttccta tgtgctggaa taaaaggtgt
     2041 gtgcatgtgt gtgtgcgcat atgtgtgcgc ctgcatggat gtgaggggtg tgtgacgtga
     2101 ggctatctga ggggggctgt gtgcatgcac atgatcctag gtatgtatgt tggacagtgc
     2161 acacgtgtgt gttcacagac aatacaacat gccctctctg gtgccccagg tcttggtatc
     2221 cccagcttag tgaccagact tacttgcact gtatttattg aaattcaggc ttggagtggc
     2281 ctgggaggag ggcctgccag cagctgccac gggaacagcc tctgggctgt taaagtcaca
     2341 ttaaagtctt tttcagtaaa
//
