LOCUS       NM_053363               5578 bp    mRNA    linear   ROD 27-MAR-2024
DEFINITION  Rattus norvegicus chloride voltage-gated channel 3 (Clcn3),
            transcript variant 1, mRNA.
ACCESSION   NM_053363 XM_341428
VERSION     NM_053363.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 5578)
  AUTHORS   Yang,X., Zhao,C., Mahdy,S.A., Xu,P., Yu,M., Wu,J., Wang,L.,
            Jacob,T.J., Zhu,L., Peng,S., Deng,Z., Chen,L. and Wang,L.
  TITLE     A chloride channel in rat pancreatic acinar AR42J cells is
            sensitive to extracellular acidification and dependent on ROS
  JOURNAL   Biochem Biophys Res Commun 526 (3), 592-598 (2020)
   PUBMED   32247607
  REMARK    GeneRIF: A chloride channel in rat pancreatic acinar AR42J cells is
            sensitive to extracellular acidification and dependent on ROS.
REFERENCE   2  (bases 1 to 5578)
  AUTHORS   Chen,Y.F., Chen,Z.X., Wang,R.H., Shi,Y.W., Xue,L., Wang,X.G. and
            Zhao,H.
  TITLE     Knockdown of CLC-3 in the hippocampal CA1 impairs contextual fear
            memory
  JOURNAL   Prog Neuropsychopharmacol Biol Psychiatry 89, 132-145 (2019)
   PUBMED   30025794
  REMARK    GeneRIF: Knockdown of CLC-3 in hippocampal CA1 significantly
            attenuates the contextual fear memory, reduces spine density,
            induces defects of excitatory synaptic ultrastructure showed by the
            decreased PSD length, PSD thickness and active zone length, and
            impairs L-LTP induction and maintenance, and induces the synaptic
            NMDAR subunit composition to an increased GluN2A/GluN2B ratio
            pattern and reduces the activity of CaMKII-alpha.
REFERENCE   3  (bases 1 to 5578)
  AUTHORS   Fan,F., Qi,J., Liu,N., Wang,Z., Wang,W., Liu,H., Xu,X., Chen,G.,
            Wang,X., Yang,H., Johnson,M., Tu,Y., Liu,T. and Fu,J.
  TITLE     TGF-beta/TGF-beta RII/CLC-3 axis promotes cognitive disorders in
            diabetes
  JOURNAL   Front Biosci (Landmark Ed) 24 (3), 482-493 (2019)
   PUBMED   30468668
  REMARK    GeneRIF: Data suggest that the chloride channel-3 (CLC-3) might be
            modulated by transforming growth factor beta (TGF-beta) / TGF-beta
            Receptor II (TGF- beta RII) signaling pathway during the
            development of diabetic encephalopathy (DE).
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 5578)
  AUTHORS   Li,C., Huang,D., Tang,J., Chen,M., Lu,Q., Li,H., Zhang,M., Xu,B.
            and Mao,J.
  TITLE     ClC-3 chloride channel is involved in isoprenaline-induced cardiac
            hypertrophy
  JOURNAL   Gene 642, 335-342 (2018)
   PUBMED   29158167
  REMARK    GeneRIF: Results have shown that the expression of ClC-3 was
            reduced in hypertrophic H9c2 cells, primary rat neonatal
            cardiomyocytes and myocardium of C57/BL/6 mice and that ClC-3
            played an important role in beta-adrenergic cardiac hypertrophy.
REFERENCE   5  (bases 1 to 5578)
  AUTHORS   Ji,L., Cheng,L. and Yang,Z.
  TITLE     Upregulations of Clcn3 and P-Gp Provoked by Lens Osmotic Expansion
            in Rat Galactosemic Cataract
  JOURNAL   J Diabetes Res 2017, 3472735 (2017)
   PUBMED   29527534
  REMARK    GeneRIF: Galactosemia caused the osmotic stress in lenses; it also
            markedly leads to the upregulations of aldose reductase,
            P-glycoprotein, and Clcn3 in lens epithelial cells, together
            resulting in obvious osmotic expansion in vitro and in vivo.
REFERENCE   6  (bases 1 to 5578)
  AUTHORS   Yoshikawa,M., Uchida,S., Ezaki,J., Rai,T., Hayama,A., Kobayashi,K.,
            Kida,Y., Noda,M., Koike,M., Uchiyama,Y., Marumo,F., Kominami,E. and
            Sasaki,S.
  TITLE     CLC-3 deficiency leads to phenotypes similar to human neuronal
            ceroid lipofuscinosis
  JOURNAL   Genes Cells 7 (6), 597-605 (2002)
   PUBMED   12059962
REFERENCE   7  (bases 1 to 5578)
  AUTHORS   Huang,P., Liu,J., Di,A., Robinson,N.C., Musch,M.W., Kaetzel,M.A.
            and Nelson,D.J.
  TITLE     Regulation of human CLC-3 channels by multifunctional
            Ca2+/calmodulin-dependent protein kinase
  JOURNAL   J Biol Chem 276 (23), 20093-20100 (2001)
   PUBMED   11274166
REFERENCE   8  (bases 1 to 5578)
  AUTHORS   Stobrawa,S.M., Breiderhoff,T., Takamori,S., Engel,D., Schweizer,M.,
            Zdebik,A.A., Bosl,M.R., Ruether,K., Jahn,H., Draguhn,A., Jahn,R.
            and Jentsch,T.J.
  TITLE     Disruption of ClC-3, a chloride channel expressed on synaptic
            vesicles, leads to a loss of the hippocampus
  JOURNAL   Neuron 29 (1), 185-196 (2001)
   PUBMED   11182090
REFERENCE   9  (bases 1 to 5578)
  AUTHORS   Shimada,K., Li,X., Xu,G., Nowak,D.E., Showalter,L.A. and
            Weinman,S.A.
  TITLE     Expression and canalicular localization of two isoforms of the
            ClC-3 chloride channel from rat hepatocytes
  JOURNAL   Am J Physiol Gastrointest Liver Physiol 279 (2), G268-G276 (2000)
   PUBMED   10915634
REFERENCE   10 (bases 1 to 5578)
  AUTHORS   Kawasaki,M., Uchida,S., Monkawa,T., Miyawaki,A., Mikoshiba,K.,
            Marumo,F. and Sasaki,S.
  TITLE     Cloning and expression of a protein kinase C-regulated chloride
            channel abundantly expressed in rat brain neuronal cells
  JOURNAL   Neuron 12 (3), 597-604 (1994)
   PUBMED   8155321
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000016.1.
            
            On Jun 3, 2021 this sequence version replaced NM_053363.2.
            
            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 :: AF142778.1, SRR26643287.32581.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-456               JAXUCZ010000016.1  34138004-34138459
            457-632             JAXUCZ010000016.1  34147225-34147400
            633-790             JAXUCZ010000016.1  34179937-34180094
            791-890             JAXUCZ010000016.1  34183680-34183779
            891-1078            JAXUCZ010000016.1  34184921-34185108
            1079-1201           JAXUCZ010000016.1  34186936-34187058
            1202-1408           JAXUCZ010000016.1  34188499-34188705
            1409-1489           JAXUCZ010000016.1  34190897-34190977
            1490-2035           JAXUCZ010000016.1  34192049-34192594
            2036-2222           JAXUCZ010000016.1  34194336-34194522
            2223-2621           JAXUCZ010000016.1  34196473-34196871
            2622-2838           JAXUCZ010000016.1  34202042-34202258
            2839-5578           JAXUCZ010000016.1  34208245-34210984
FEATURES             Location/Qualifiers
     source          1..5578
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="16"
                     /map="16p12"
     gene            1..5578
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /note="chloride voltage-gated channel 3"
                     /db_xref="GeneID:84360"
                     /db_xref="RGD:621219"
     exon            1..456
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            457..632
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     CDS             473..2929
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /note="isoform 1 is encoded by transcript variant 1;
                     h(+)/Cl(-) exchange transporter 3; protein kinase
                     C-regulated chloride channel; chloride channel protein 3;
                     chloride transporter ClC-3; chloride channel 3; chloride
                     channel, voltage-sensitive 3"
                     /codon_start=1
                     /product="H(+)/Cl(-) exchange transporter 3 isoform 1"
                     /protein_id="NP_445815.2"
                     /db_xref="GeneID:84360"
                     /db_xref="RGD:621219"
                     /translation="MESEQLFHRGYYRNSYNSITSASSDEELLDGAGAIMDFQTSEDD
                     NLLDGDTAAGTHYTMTNGGSINSSTHLLDLLDEPIPGVGTYDDFHTIDWVREKCKDRE
                     RHRRINSKKKESAWEMTKSLYDAWSGWLVVTLTGLASGALAGLIDIAADWMTDLKEGI
                     CLSALWYNHEQCCWGSNETTFEERDKCPQWKTWAELIIGQAEGPGSYIMNYIMYIFWA
                     LSFAFLAVSLVKVFAPYACGSGIPEIKTILSGFIIRGYLGKWTLMIKTITLVLAVASG
                     LSLGKEGPLVHVACCCGNIFSYLFPKYSTNEAKKREVLSAASAAGVSVAFGAPIGGVL
                     FSLEEVSYYFPLKTLWRSFFAALVAAFVLRSINPFGNSRLVLFYVEYHTPWYLFELFP
                     FILLGVFGGLWGAFFIRANIAWCRRRKSTKFGKYPVLEVIIVAAITAVIAFPNPYTRL
                     NTSELIKELFTDCGPLESSSLCDYRNDMNASKIVDDIPDRPAGVGVYSAIWQLCLALI
                     FKIIMTVFTFGIKVPSGLFIPSMAIGAIAGRIVGIAVEQLAYYHHDWFIFKEWCEVGA
                     DCITPGLYAMVGAAACLGGVTRMTVSLVVIVFELTGGLEYIVPLMAAVMTSKWVGDAF
                     GREGIYEAHIRLNGYPFLDAKEEFTHTTLAADVMRPRRSDPPLAVLTQDNMTVDDIEN
                     MINETSYNGFPVIMSKESQRLVGFALRRDLTIAIESARKKQEGVVGSSRVCFAQHTPS
                     LPAESPRPLKLRSILDMSPFTVTDHTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKK
                     DILRHMAQTANQDPASIMFN"
     exon            633..790
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            791..890
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            891..1078
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1079..1201
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1202..1408
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1409..1489
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1490..2035
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            2036..2222
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            2223..2621
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            2622..2838
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
     exon            2839..5578
                     /gene="Clcn3"
                     /gene_synonym="ClC-3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gcgggtcagg gccggtccgg tcgggatcgc tctgctgcca gctcagtgcc ggtgcgctcg
       61 gggcgggccc gccgtccgga ggatgaggct ggagtgggcg gaggcgtgag aaccgggtta
      121 ctttcctccc gaggtggagc gcggctgccc tgtagtcctt tgaaagcgct gtgaacccgg
      181 agactcaagt cggggcagag gcaggttgac tagagggccc gctagagccg gaggattgaa
      241 cttcaccccg aaaccagcct ccgccagtcc cacctggccg catttacgta acctcttccc
      301 aaagccgggt agcagtgaag tccgccgggg tggccacccg gcagccgtgt cccggtgaag
      361 ctcccggggc ggctggcgcg ggatctcaag cagatgcggg gtccacaggc agcgcatcca
      421 ccagccgccg agcttgctat gcctctgagc tgcaagataa gcagccagct acatggagtc
      481 tgagcagctg ttccatagag gctactatag aaacagctac aacagcataa cgagcgcgag
      541 tagcgatgag gagctcctag atggagcagg tgctattatg gactttcaga cttccgaaga
      601 cgacaatttg ttagacggtg acacagcagc tggaactcat tatacaatga caaatggagg
      661 cagcattaac agctccacac acttgctgga tcttttggat gagcccatcc caggtgtcgg
      721 tacatacgat gatttccata ctattgactg ggtgcgagaa aagtgtaagg acagagaaag
      781 gcacagacgg atcaacagta aaaaaaaaga atcagcatgg gaaatgacaa aaagtctata
      841 tgatgcttgg tcaggatggc ttgtagttac actgacggga ttggcgtcag gggcgctggc
      901 tggattgata gacattgctg ctgactggat gactgacctg aaagagggca tctgcctcag
      961 tgcattgtgg tacaaccatg aacagtgttg ttggggctct aatgagacga cgtttgaaga
     1021 gagggataaa tgtccacagt ggaaaacatg ggcagagtta atcataggtc aagcagaggg
     1081 tcctggatct tatatcatga actacatcat gtacatcttt tgggctttga gttttgcctt
     1141 tcttgcagtt tccttggtga aagtatttgc tccgtatgcc tgtggctccg gaattccaga
     1201 gattaaaact attttgagtg gattcatcat cagaggttac ttgggaaagt ggactttaat
     1261 gattaaaacc atcacattag tgctggctgt ggcatcaggt ttgagtttag gaaaagaagg
     1321 tcccttggta catgttgcct gctgctgtgg aaatatcttt tcctacctct ttccaaagta
     1381 tagcacaaat gaagctaaaa agagggaggt gctgtcagcc gcctcagctg ctggtgtctc
     1441 tgtggctttt ggtgcgccaa ttggaggagt gctttttagt ttggaggagg ttagctatta
     1501 ttttcctctc aaaactttat ggagatcgtt ttttgctgct ttggtggcgg cctttgtttt
     1561 gagatccatc aatccatttg gtaacagccg tctggtcctt ttttatgtgg agtatcatac
     1621 accatggtac ctttttgaac tgtttccttt tattctccta ggggtatttg gagggctttg
     1681 gggagctttt tttattaggg caaatattgc ctggtgtcgc cgacgcaagt ccaccaaatt
     1741 tggaaagtat cctgttcttg aagtcattat tgttgcagcc attactgctg tgatagcctt
     1801 ccccaaccca tacacaaggc tcaacaccag tgaactgatt aaagagctgt ttacagactg
     1861 tggccccttg gaatcctcct ctctttgtga ctacagaaat gacatgaatg ccagtaaaat
     1921 tgttgatgat attcctgacc gaccagcagg cgttggagta tattcagcta tctggcagtt
     1981 gtgcctagca ctcatattta aaataataat gacagtattc acttttggta tcaaggtccc
     2041 gtcgggcctg tttatcccca gcatggcgat cggagccatt gcagggagga ttgtggggat
     2101 tgctgtggag cagctcgcct actaccacca cgactggttc atcttcaagg agtggtgtga
     2161 ggtcggggct gactgcatca ctcctgggct gtatgccatg gttggtgctg ccgcatgctt
     2221 aggtggtgtg acaagaatga ctgtctctct ggtggttatt gtttttgaac ttactggagg
     2281 cttggaatat attgttcctc ttatggctgc agtaatgacc agtaaatggg ttggtgatgc
     2341 ctttggtagg gaaggtattt atgaagcaca catccgacta aatgggtacc ctttcttgga
     2401 tgcaaaagaa gaattcactc atacaaccct ggctgctgat gtcatgagac ctcgaagaag
     2461 tgaccctccc ttagctgttt tgacacagga caatatgaca gtagatgaca tagaaaacat
     2521 gattaatgag accagctata atggctttcc tgttataatg tcaaaagaat ctcagagatt
     2581 agtgggattt gccctcagaa gagacctgac aattgcaata gaaagtgcca gaaaaaaaca
     2641 agaaggtgtt gttggcagtt ctcgggtgtg ctttgcccaa cacactccat ctcttccagc
     2701 agaaagtcct cggccattaa aactgagaag catccttgac atgagtcctt ttacagtgac
     2761 agaccacacc ccaatggaga ttgtggtaga catcttccga aagcttggtc tgaggcagtg
     2821 ccttgtcact cacaatgggc gcctccttgg cattataaca aaaaaagata tcctccgtca
     2881 tatggcccag acggcaaacc aagaccccgc ttcaataatg ttcaactgag tcctgtagat
     2941 gaggagagag aggagacaga agaggaagtt cgtttgttga atagcacaat tctttaatct
     3001 gcgggactcg tccacttttt tcttctttaa aaaaaaaaaa aaggaaagga aatacaagat
     3061 gagcttttgc aacccagatt gcaaataatg ctgggagaac agagggattg tttggggagg
     3121 gagacagaaa aagagtgagg tatttcccta actaatggca acagtaatcc atctcacgtt
     3181 gttctgcact gtcgcattca ctgaggctat gcagtgagag tgcaggcttg agcctccctg
     3241 gagccttcat tggaatcctc gagcatctgg ctgttacgtc agcaccacag agacgcatta
     3301 tcgtccctat ttctggaggg attactgtga attgagccat ctattaagac tgcaaggtct
     3361 tgccctttta tatcagaact gttgtgttta actcatgaat tgtatagtta agcatcacct
     3421 ttctacattc caaaagagct tctctcccct ccctccctcc ccctgccccc ccaagctgta
     3481 acaaaacctc tttggtgtgt cgttttgaag cagtcctttc tcatattgag atgtactgtg
     3541 atcttactga cgtttcatca caagaaggga atgtttcttg tgccattaac catgtagtgt
     3601 gtcccatcac taaaggcttg ggaatgtgtg cacaccactg ctggccaagc aggtacgcat
     3661 ggaggtatga acaaaggccc cagcttgtgt gccatgtggt tcagaatcaa aggcaaactt
     3721 gactctaatc agttttattt tttcctcaga ctttatggat aatgtgacct aatcttatgc
     3781 aaattttcta tttctgaaat tcctactatg acataaaagt gctgttgagc ataattaaac
     3841 caaatgctgc tgtgtgacat ggagagaagg aaggattctg tttagctgta cctggtattg
     3901 attgcatgtt aaacactggg actcttttca aattagatca ttcttttatt tcaggatgtt
     3961 tcactgctga cactggagat gaactgtaat tcataacttg cactaaatgt atatttcctt
     4021 tcttaaaaat ttaccatttt tatttatatt tttatggatt aaaatttata aaatgaagat
     4081 cagttaatat tgcacttaaa taattttacc tttttaatgt ggcttttttt taatagacta
     4141 attttgactt acaaataagg aggtatgagc aaagattgca atgggcacaa aggtttaaga
     4201 agaggtggtc acttctgtga tcccagagta cacatgatac cttctgattt ctcactgcca
     4261 tctcttgggt catgccctcc gacctgtcca ttcccaccac aactagagag ttgaaaatac
     4321 cataaattac cactagtaga ttaaagccaa accttttgtt ttgttttgtt tttttaggaa
     4381 agaaaaacca atcaaaaatg agtcactggg taggtcacag ccgtccctga agtgttccgt
     4441 gatgatttga atagatgtgg tgcagattag ttacaatgta cttccgagta cttaagagtt
     4501 gttactggca gtgtctgtgt taatcatggt ctgaattcac tactggcaaa ggatgcttgc
     4561 tcaccacact gacccaggca gtcttcgagt atgaattttc taaaggcaaa tgcatttgtg
     4621 cagacagata ttttctgaaa caactggcaa tgagccattt ttaataaatt tcagttcaca
     4681 ttagatctgt atgatcttga agacttagaa gatcaggaag ccatattagc gggagccaaa
     4741 gttcaccaaa attggaggat ttctcagctg tgctctatgc caacaatatt ttgtgttttt
     4801 actctggttg gcaggtttca acattcttgt tgttctgtgg ctcagtagag tgagctcatt
     4861 tttaatgata gttcttagct cttaaagtaa acttccagta tggaagacac tgctgggcta
     4921 aagtctccag catggctgat tggtgcctca gccccttctg ggttctaagt cttcaaagga
     4981 gaagccggtt tctttgtagc ttcacacgat gaaaatgaac atgattaagt ttccatattt
     5041 ccttttattt tacattctgc tttcatgacc catcttcaga gactgacatt tctttgttac
     5101 atttctcaat ctgatgtgtc ttactgctga aatacatgaa aagtgccgtt tttaatgcgt
     5161 tcagaggttt gggttttttg gggggggggt attactatct gttggttcct tttgtttgtt
     5221 ttgttttgtt tttttcccat aaagatttgg ttgattttta accagataag atagtggata
     5281 ccatgaacta catgtgccta gctaattggc aaatttattg accaatatac taagtgcagc
     5341 gccttatttg agtacccttt ttgagaaggt atgatgaaaa tgggcgagcg tgtcagcatc
     5401 taataataat cgtttttggt tttggttcat gaagaatgct tagtttgtta acctgtgatg
     5461 ttgcctagag ctgtatttat ctgtttttat ttatactagt atagtaaaag ctgcatatca
     5521 ttacagtaaa aacgattact gtgatgagtt aagatctatt aaaatctcta cttaaata
//
