LOCUS       NM_173874               5751 bp    mRNA    linear   ROD 21-AUG-2024
DEFINITION  Mus musculus chloride channel, voltage-sensitive 3 (Clcn3),
            transcript variant e, mRNA.
ACCESSION   NM_173874
VERSION     NM_173874.2
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 5751)
  AUTHORS   Tourkova,I.L., Larrouture,Q.C., Liu,S., Luo,J., Shipman,K.E.,
            Onwuka,K.M., Weisz,O.A., Riazanski,V., Nelson,D.J., MacDonald,M.L.,
            Schlesinger,P.H. and Blair,H.C.
  TITLE     Chloride/proton antiporters ClC3 and ClC5 support bone formation in
            mice
  JOURNAL   Bone Rep 21, 101763 (2024)
   PUBMED   38666049
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5751)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   3  (bases 1 to 5751)
  AUTHORS   Nakashima,M., Argilli,E., Nakano,S., Sherr,E.H., Kato,M. and
            Saitsu,H.
  TITLE     De novo CLCN3 variants affecting Gly327 cause severe
            neurodevelopmental syndrome with brain structural abnormalities
  JOURNAL   J Hum Genet 68 (4), 291-298 (2023)
   PUBMED   36536096
  REMARK    GeneRIF: De novo CLCN3 variants affecting Gly327 cause severe
            neurodevelopmental syndrome with brain structural abnormalities.
REFERENCE   4  (bases 1 to 5751)
  AUTHORS   Jingxuan,L., Litian,M., Yanyang,T. and Jianfang,F.
  TITLE     Knockdown of CLC-3 may improve cognitive impairment caused by
            diabetic encephalopathy
  JOURNAL   Diabetes Res Clin Pract 190, 109970 (2022)
   PUBMED   35792204
  REMARK    GeneRIF: Knockdown of CLC-3 may improve cognitive impairment caused
            by diabetic encephalopathy.
REFERENCE   5  (bases 1 to 5751)
  AUTHORS   Comini,M., Sierra-Marquez,J., Guzman,G., Franzen,A., Willuweit,A.,
            Katona,I., Hidalgo,P., Fahlke,C. and Guzman,R.E.
  TITLE     CLC Anion/Proton Exchangers Regulate Secretory Vesicle Filling and
            Granule Exocytosis in Chromaffin Cells
  JOURNAL   J Neurosci 42 (15), 3080-3095 (2022)
   PUBMED   35241492
REFERENCE   6  (bases 1 to 5751)
  AUTHORS   Grewal,P.K., Bolland,D.J., Todd,L.C. and Hewitt,J.E.
  TITLE     High-resolution mapping of mouse chromosome 8 identifies an
            evolutionary chromosomal breakpoint
  JOURNAL   Mamm Genome 9 (8), 603-607 (1998)
   PUBMED   9680377
REFERENCE   7  (bases 1 to 5751)
  AUTHORS   Grewal,P.K., van Deutekom,J.C., Mills,K.A., Lemmers,R.J.,
            Mathews,K.D., Frants,R.R. and Hewitt,J.E.
  TITLE     The mouse homolog of FRG1, a candidate gene for FSHD, maps proximal
            to the myodystrophy mutation on chromosome 8
  JOURNAL   Mamm Genome 8 (6), 394-398 (1997)
   PUBMED   9166581
REFERENCE   8  (bases 1 to 5751)
  AUTHORS   Mills,K.A., Mathews,K.D., Scherpbier-Heddema,T., Buetow,K.H.,
            Baldini,A., Ballabio,A. and Borsani,G.
  TITLE     Genetic and physical mapping of a voltage-dependent chloride
            channel gene to human 4q32 and to mouse 8
  JOURNAL   Genomics 36 (2), 374-376 (1996)
   PUBMED   8812471
REFERENCE   9  (bases 1 to 5751)
  AUTHORS   Borsani,G., Rugarli,E.I., Taglialatela,M., Wong,C. and Ballabio,A.
  TITLE     Characterization of a human and murine gene (CLCN3) sharing
            similarities to voltage-gated chloride channels and to a yeast
            integral membrane protein
  JOURNAL   Genomics 27 (1), 131-141 (1995)
   PUBMED   7665160
REFERENCE   10 (bases 1 to 5751)
  AUTHORS   Mills,K.A., Mathews,K.D., Scherpbier-Heddema,T., Schelper,R.L.,
            Schmalzel,R., Bailey,H.L., Nadeau,J.H., Buetow,K.H. and Murray,J.C.
  TITLE     Genetic mapping near the myd locus on mouse chromosome 8
  JOURNAL   Mamm Genome 6 (4), 278-280 (1995)
   PUBMED   7613034
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC114920.7.
            
            On Feb 15, 2023 this sequence version replaced NM_173874.1.
            
            Transcript Variant: This variant (e) includes an alternate exon in
            the 3' coding region that causes a frameshift, compared to variant
            b. It encodes isoform e which is longer and has a distinct
            C-terminus, compared to isoform b.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: AK150688.1, AK169297.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-509               AC114920.7         190877-191385       c
            510-685             AC114920.7         183833-184008       c
            686-843             AC114920.7         149358-149515       c
            844-943             AC114920.7         146649-146748       c
            944-1131            AC114920.7         145401-145588       c
            1132-1254           AC114920.7         142586-142708       c
            1255-1461           AC114920.7         141182-141388       c
            1462-1542           AC114920.7         138782-138862       c
            1543-2088           AC114920.7         137172-137717       c
            2089-2275           AC114920.7         135333-135519       c
            2276-2674           AC114920.7         130891-131289       c
            2675-2891           AC114920.7         127441-127657       c
            2892-2967           AC114920.7         122854-122929       c
            2968-5751           AC114920.7         118493-121276       c
FEATURES             Location/Qualifiers
     source          1..5751
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="8"
                     /map="8 30.9 cM"
     gene            1..5751
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /note="chloride channel, voltage-sensitive 3"
                     /db_xref="GeneID:12725"
                     /db_xref="MGI:MGI:103555"
     exon            1..509
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            510..685
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     CDS             526..3126
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /note="isoform e is encoded by transcript variant e;
                     h(+)/Cl(-) exchange transporter 3; clC-3; chloride channel
                     protein 3; chloride transporter ClC-3; chloride channel 3"
                     /codon_start=1
                     /product="H(+)/Cl(-) exchange transporter 3 isoform e"
                     /protein_id="NP_776299.1"
                     /db_xref="CCDS:CCDS52555.1"
                     /db_xref="GeneID:12725"
                     /db_xref="MGI:MGI:103555"
                     /translation="MESEQLFHRGYYRNSYNSITSASSDEELLDGAGAIMDFQTSEDD
                     NLLDGDTAAGTHYTMTNGGSINSSTHLLDLLDEPIPGVGTYDDFHTIDWVREKCKDRE
                     RHRRINSKKKESAWEMTKSLYDAWSGWLVVTLTGLASGALAGLIDIAADWMTDLKEGI
                     CLSALWYNHEQCCWGSNETTFEERDKCPQWKTWAELIIGQAEGPGSYIMNYIMYIFWA
                     LSFAFLAVSLVKVFAPYACGSGIPEIKTILSGFIIRGYLGKWTLMIKTITLVLAVASG
                     LSLGKEGPLVHVACCCGNIFSYLFPKYSTNEAKKREVLSAASAAGVSVAFGAPIGGVL
                     FSLEEVSYYFPLKTLWRSFFAALVAAFVLRSINPFGNSRLVLFYVEYHTPWYLFELFP
                     FILLGVFGGLWGAFFIRANIAWCRRRKSTKFGKYPVLEVIIVAAITAVIAFPNPYTRL
                     NTSELIKELFTDCGPLESSSLCDYRNDMNASKIVDDIPDRPAGVGVYSAIWQLCLALI
                     FKIIMTVFTFGIKVPSGLFIPSMAIGAIAGRIVGIAVEQLAYYHHDWFIFKEWCEVGA
                     DCITPGLYAMVGAAACLGGVTRMTVSLVVIVFELTGGLEYIVPLMAAVMTSKWVGDAF
                     GREGIYEAHIRLNGYPFLDAKEEFTHTTLAADVMRPRRSDPPLAVLTQDNMTVDDIEN
                     MINETSYNGFPVIMSKESQRLVGFALRRDLTIAIESARKKQEGIVGSSRVCFAQHTPS
                     LPAESPRPLKLRSILDMSPFTVTDHTPMEIVVDIFRKLGLRQCLVTHNGIVLGIITKK
                     NILEHLEQLKQHVEPLTPPWHYNKKRYPPSYGPDGKPRPRFNNVQLSPVDEDREETEE
                     EVRLLNSTIL"
     exon            686..843
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            844..943
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            944..1131
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            1132..1254
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            1255..1461
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            1462..1542
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            1543..2088
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            2089..2275
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            2276..2674
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            2675..2891
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            2892..2967
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     exon            2968..5751
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      5732..5737
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /note="hexamer: ATTAAA"
     polyA_site      5751
                     /gene="Clcn3"
                     /gene_synonym="Clc3"
                     /note="major polyA site"
ORIGIN      
        1 gacgcacctg tcgggctccg actcctgcag cttctcttcc agttcagcgg gtcagggctg
       61 gtcgcggaat cgctcggctg tcacctcgcc agctcgttgc cggtgcgctc ggggcgggcc
      121 gtccgtccgt ctgtccggag gatgaggctg gagtgggcgg aggcgtgaga accgcgttac
      181 tttcctcccg aggtggagcg cgactgctcc tgtagtcctt ggagagcgca gtgagcctcc
      241 agtcggggca gaggcgggtt ggtttgaggg cccgctggag ccggaggatt gaacttcacc
      301 ctgaaaccag cctccgccgg tcccacctgg ccgcctttac gtaacctctc ctgaaaggcc
      361 ggtagcagta aagtccgccg gggtggccac ccggcagcgg tgtcccggtg aagctcccgg
      421 ggcggctggc gcgcgatcgc aagcagatgc ggggtccaca ggcagcgcag ccaccagccg
      481 cccagcttgc tatgcctctg agctgcaaga taagcagaca gctaaatgga gtctgagcag
      541 ctgttccata gaggctacta tagaaacagc tacaacagca taaccagcgc gagtagcgat
      601 gaggagctcc tagatggagc aggtgccatt atggactttc agacttctga agatgacaat
      661 ttgttagacg gggacacagc agctggaact cattatacaa tgacaaatgg aggcagcatt
      721 aatagctcta cacacttgct ggatcttttg gatgagccta tcccaggtgt cggtacctac
      781 gatgatttcc atactattga ctgggtgcga gagaagtgta aggacagaga aaggcacaga
      841 cggatcaaca gtaaaaaaaa agaatcagca tgggaaatga caaaaagtct gtatgacgcc
      901 tggtcaggat ggcttgttgt tacactgacg ggactggcat caggggcact agctggattg
      961 atagacattg ctgctgactg gatgactgac ctgaaggagg gcatctgcct cagtgcattg
     1021 tggtacaacc atgaacagtg ttgttggggc tctaatgaga caacgtttga agagagggat
     1081 aaatgtccac agtggaaaac atgggcagag ttaatcattg gccaagcaga gggccctgga
     1141 tcttatatca tgaactacat catgtacatc ttttgggctt tgagttttgc ctttcttgca
     1201 gtttctttgg tgaaagtatt tgctccatat gcctgtggct ctggaattcc agagattaaa
     1261 actattttga gtggatttat catcagagga tacttgggaa aatggacttt aatgattaaa
     1321 actatcacgt tagtgctggc tgtggcatca ggtttgagtt taggaaaaga aggtcccctg
     1381 gtacatgttg cctgctgctg tggaaacatc ttttcctacc tctttccaaa gtatagcacc
     1441 aatgaagcta aaaagaggga ggtgctgtca gccgcctcag ctgctggggt ttctgtggct
     1501 tttggtgcac cgatcggagg agttcttttt agcttggagg aggttagcta ttattttcct
     1561 ctcaaaactt tatggagatc attttttgct gctttggtgg cagcatttgt tttgagatcc
     1621 atcaatccat ttggtaacag ccgtctggtc ctcttttatg tggagtatca tacaccatgg
     1681 tacctttttg aactgtttcc ttttattctc ctaggggtat ttggagggct ttggggagct
     1741 ttttttatta gggcaaatat tgcctggtgt cgtcgacgca agtccaccaa atttggaaag
     1801 tatcctgttc tcgaagtcat tattgttgca gccattactg ctgtgatagc cttccccaac
     1861 ccatacacaa ggctcaacac cagtgaactg attaaagagc tgtttacaga ttgtgggccg
     1921 ttggaatcct cctctctctg tgactacaga aatgacatga atgccagtaa aattgttgac
     1981 gatattcctg accgtccagc aggcgttgga gtatattcag ctatctggca gttgtgccta
     2041 gcgctcatat ttaaaataat aatgacagta ttcacttttg gtatcaaggt cccgtcaggc
     2101 ttgtttatcc ccagcatggc cattggagcc attgcaggga gaattgtggg gatcgctgtg
     2161 gagcagcttg cctactatca ccacgactgg tttatcttca aggagtggtg tgaggttggg
     2221 gctgactgca tcactcccgg gctgtatgcc atggttgggg ctgctgcgtg cttaggtggt
     2281 gtgacaagaa tgactgtgtc tctggtggtt attgtttttg aacttactgg aggcttggaa
     2341 tatattgttc ctcttatggc tgcagtaatg accagtaaat gggttggtga tgcctttggt
     2401 agggaaggta tttatgaagc acacatccga ctaaatgggt accctttctt ggatgcaaaa
     2461 gaagaattca ctcatacaac cctggctgct gatgttatga gacctcgaag aagtgaccct
     2521 cccttagctg ttttgacaca ggacaatatg acagtagatg acatagaaaa catgattaat
     2581 gaaaccagct ataatggctt tcctgttata atgtcaaaag aatctcagag attagtggga
     2641 tttgccctca gaagagacct gactattgca atagaaagtg ccagaaaaaa acaagaaggg
     2701 attgttggca gttctcgggt gtgttttgca cagcatactc catctcttcc agcagaaagt
     2761 ccacggccat taaaactgag aagcatcctt gacatgagcc cttttacagt gacagaccac
     2821 accccaatgg agattgtggt agacatcttt cgaaagcttg gtctgaggca gtgccttgta
     2881 actcacaacg ggattgtctt ggggatcatc acaaagaaga acattttaga gcatctcgag
     2941 caactaaagc agcacgtgga gcccttgacg cctccttggc attataacaa aaaaagatat
     3001 cctccgtcat atggcccaga cggcaaacca agaccccgct tcaataatgt tcaactgagt
     3061 cctgtagatg aggacagaga ggagacagaa gaggaagttc gtttgttgaa tagcacaatt
     3121 ctttaatctg cgggactcgt ccactttttt cttctttcaa aaaaaaaaaa aaaaggaaat
     3181 acaaggcgag ctttgcaacc cggtttgcaa ataatgctgg gagagcagag ggattgtttg
     3241 gggagggaga agggaaagag tgaggtattt ccctagctac ctggaacagt aattcatctc
     3301 atgttgctct gcacctcact ggctgcactc cctgaggagt gcagtgggag tgcaggcttg
     3361 agcctccgcg gagccgtccg tctgtccctg ggatcctcga gcgtctggcg gttccctcag
     3421 caccacagag acgcattaca gtccctactt ctggagggac tactttgaat tgagccatct
     3481 attaagactg caaggtcttg cccttttata ccagaactgt tgtgttaaac tcatgaattg
     3541 tatagttacg catcaccttt ctacattcca aaagagcttc tctgtcctcc ctcccccttc
     3601 ctctggagct gtaacgaaac ctctctggtg tgtccttttg aagcagtcct ttctcatatt
     3661 gagatgtact gtgattttac tgacgtttca tcacaagaag ggaatgtttc ttgtgccatt
     3721 aaccatgtag tctgtaccat cactaaaggc ttgggaatgt gtgcacacac cactgctggc
     3781 caagcaggga aaatctggag gtgtgaatgc aatctcccag cttgtgtgct gtgtggttca
     3841 gaatctaaaa caaacttgac tctaatcagt tttatttttt cctctcagac tttatggata
     3901 atgtgaccta gtcttatgca aattttctat ttctgagatg actactatga cagagaagtg
     3961 ctgttcagca taacgaaagc aagcgctgct gccgtgactg taaagaggag gaaggagtct
     4021 gtttagctgt acctggtatt aattgcatgt taaacactgg aattttgttc ttcaaattag
     4081 atcattcttt tatttcagga tgtttcactg ctgacactgg agatgaactg taattcataa
     4141 cttgcactaa atgtatattt cttttcttaa aaatttacca tttttattta tatttttatg
     4201 gattaaaatt tataaaatgc agatcagtta atattgcaca taaataattt taccttttta
     4261 atgtgacttt ttttaataga ctaattctga cttacaaata tggaggtatg agtaaagatt
     4321 accatgggca caagggttta agaagaggta gtcatgtccg tgacccagag tacacatgat
     4381 accttctgat ttctcactgc catctcctgg cctatgccct ttgacctgtc catcttgacc
     4441 acaaactaga aagttgaaaa taccataaat tactagtact agattaaagc caaacttttt
     4501 ttttttttta agaaaaatca atcaaaaatg aaaacaagaa aatcacagtg tggttataac
     4561 ctttgaatca ctgggtaggt cacagccatc cctgaagtgt tctgtgatga tttcagtaga
     4621 tatggtgcac gttttacaga ttagttataa tgtacctcag agtataagga gttgttattg
     4681 gcagtgtttt aatcatggtc ttaatttcca actggcaaag ggtgtttact cactagactg
     4741 cccagctagt cttcaagtat gcatttttca aaggccaaat gcatttgtgc agacagatat
     4801 tttctgaaac aactggcatg agccattttt aataaatatg aaatcacatt aggtctgtat
     4861 gatcttgaag acttagaaaa tcaggaagcc atattcgagt gatccaaagt tccccaaaat
     4921 tgctgtctgc cagtgatatt ttgtcttttt actcctgatg gcagatttca atattcctcg
     4981 ttgctctttg gctaaataga gtggactcat ttttaatggt agttctgtag ctctgaaagt
     5041 attcttgcag tatggaagac actgctgggg taggaactct tcagcactgc tgattggtgg
     5101 ctcagcccct tctgagttcc aggtcttcaa aggagacgcc agtttctttg tagtttaacg
     5161 cgatgaaact gaacatgatt ttttttcccc cacatttcct tttctttcat attctggttt
     5221 catgacccat cttcagagac tgacatttca ggatccatat taaagcattc attttctttg
     5281 ttacatttct ctatctgatg tgtcttactg ctgaaacaca tgaaaagtga cgtgttttta
     5341 atgcgttcag aggtttggag tttgtttttt ctttcttttg ggtattacta tctgttctgt
     5401 ttttctcttt tcataaaggt ttggttgatt tccaaccaaa taagatagtg gataccatga
     5461 actacatgtg cctagctaat tggcaaactt attgaccaat atactaagtg cagcgcctca
     5521 tttgagtacc ctttttagga aggtatgatg aaaatgggcg agcgtgtcag catctattaa
     5581 taatcgtttt tggttttggt tcatgaagaa tgcttagttt gttaacctgt gatgttgcct
     5641 agagctgtat ttatctgttt ttatttatac tagtgtagta aaagctgcat atcattacag
     5701 taaaaatgat tactgtgatg agttaagatc tattaaaatc tctacttaaa a
//
