LOCUS       NM_001243762            4170 bp    mRNA    linear   ROD 21-MAY-2024
DEFINITION  Mus musculus chloride channel, voltage-sensitive 5 (Clcn5),
            transcript variant 2, mRNA.
ACCESSION   NM_001243762 XR_106021 XR_108191
VERSION     NM_001243762.1
KEYWORDS    RefSeq; RefSeq Select.
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 4170)
  AUTHORS   Wei,C., Kesner,B., Yin,H. and Lee,J.T.
  TITLE     Imprinted X chromosome inactivation at the gamete-to-embryo
            transition
  JOURNAL   Mol Cell 84 (8), 1442-1459 (2024)
   PUBMED   38458200
REFERENCE   2  (bases 1 to 4170)
  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   3  (bases 1 to 4170)
  AUTHORS   Shipman,K.E., Baty,C.J., Long,K.R., Rbaibi,Y., Cowan,I.A.,
            Gerges,M., Marciszyn,A.L., Kashlan,O.B., Tan,R.J., Edwards,A. and
            Weisz,O.A.
  TITLE     Impaired Endosome Maturation Mediates Tubular Proteinuria in Dent
            Disease Cell Culture and Mouse Models
  JOURNAL   J Am Soc Nephrol 34 (4), 619-640 (2023)
   PUBMED   36758125
REFERENCE   4  (bases 1 to 4170)
  AUTHORS   Barone,S., Brooks,M., Zahedi,K., Holliday,L.S., Bissler,J., Yu,J.J.
            and Soleimani,M.
  TITLE     Identification of an Electrogenic 2Cl-/H+ Exchanger, ClC5, as a
            Chloride-Secreting Transporter Candidate in Kidney Cyst Epithelium
            in Tuberous Sclerosis
  JOURNAL   Am J Pathol 193 (2), 191-200 (2023)
   PUBMED   36336066
  REMARK    GeneRIF: Identification of an Electrogenic 2Cl[-]/H[+] Exchanger,
            ClC5, as a Chloride-Secreting Transporter Candidate in Kidney Cyst
            Epithelium in Tuberous Sclerosis.
REFERENCE   5  (bases 1 to 4170)
  AUTHORS   Rudloff,S., Janot,M., Rodriguez,S., Dessalle,K., Jahnen-Dechent,W.
            and Huynh-Do,U.
  TITLE     Fetuin-A is a HIF target that safeguards tissue integrity during
            hypoxic stress
  JOURNAL   Nat Commun 12 (1), 549 (2021)
   PUBMED   33483479
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4170)
  AUTHORS   Newton,J.M., Orlow,S.J. and Barsh,G.S.
  TITLE     Isolation and characterization of a mouse homolog of the X-linked
            ocular albinism (OA1) gene
  JOURNAL   Genomics 37 (2), 219-225 (1996)
   PUBMED   8921399
REFERENCE   7  (bases 1 to 4170)
  AUTHORS   Palmer,S., Perry,J. and Ashworth,A.
  TITLE     A contravention of Ohno's law in mice
  JOURNAL   Nat Genet 10 (4), 472-476 (1995)
   PUBMED   7670497
REFERENCE   8  (bases 1 to 4170)
  AUTHORS   Rugarli,E.I., Adler,D.A., Borsani,G., Tsuchiya,K., Franco,B.,
            Hauge,X., Disteche,C., Chapman,V. and Ballabio,A.
  TITLE     Different chromosomal localization of the Clcn4 gene in Mus spretus
            and C57BL/6J mice
  JOURNAL   Nat Genet 10 (4), 466-471 (1995)
   PUBMED   7670496
REFERENCE   9  (bases 1 to 4170)
  AUTHORS   Blair,H.J., Ho,M., Monaco,A.P., Fisher,S., Craig,I.W. and Boyd,Y.
  TITLE     High-resolution comparative mapping of the proximal region of the
            mouse X chromosome
  JOURNAL   Genomics 28 (2), 305-310 (1995)
   PUBMED   8530041
REFERENCE   10 (bases 1 to 4170)
  AUTHORS   Ko,M.S.
  TITLE     An 'equalized cDNA library' by the reassociation of short
            double-stranded cDNAs
  JOURNAL   Nucleic Acids Res 18 (19), 5705-5711 (1990)
   PUBMED   2216762
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL663104.17 and AL808124.12.
            
            On or before Aug 27, 2011 this sequence version replaced
            XR_106021.1, XR_108191.1.
            
            Transcript Variant: This variant (2) includes two alternate exons
            in the 5' UTR and 5' CDS, compared to variant 1. It encodes isoform
            2, which is longer and has a distinct N-terminus, compared to
            isoform 1.
            
            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. The exon combination is inferred
            based on available transcript data and further supported by similar
            exon-intron structure of the related human gene, GeneID 1184.
            
            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##
            RNAseq introns :: mixed sample support SAMN00849374, SAMN00849375
                              [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-253               AL663104.17        92789-93041         c
            254-418             AL663104.17        90342-90506         c
            419-565             AL808124.12        160468-160614       c
            566-717             AL808124.12        133788-133939       c
            718-817             AL808124.12        131395-131494       c
            818-1005            AL808124.12        125905-126092       c
            1006-1128           AL808124.12        118748-118870       c
            1129-1335           AL808124.12        117913-118119       c
            1336-1416           AL808124.12        113960-114040       c
            1417-1959           AL808124.12        113184-113726       c
            1960-2146           AL808124.12        110934-111120       c
            2147-2545           AL808124.12        109202-109600       c
            2546-2762           AL808124.12        108840-109056       c
            2763-4170           AL808124.12        106016-107423       c
FEATURES             Location/Qualifiers
     source          1..4170
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 3.21 cM"
     gene            1..4170
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /note="chloride channel, voltage-sensitive 5"
                     /db_xref="GeneID:12728"
                     /db_xref="MGI:MGI:99486"
     exon            1..253
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            254..418
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     CDS             403..2853
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /note="isoform 2 is encoded by transcript variant 2;
                     h(+)/Cl(-) exchange transporter 5; chloride channel
                     protein 5; chloride transporter ClC-5; chloride channel
                     4-1; chloride channel 5"
                     /codon_start=1
                     /product="H(+)/Cl(-) exchange transporter 5 isoform 2"
                     /protein_id="NP_001230691.1"
                     /db_xref="CCDS:CCDS57727.1"
                     /db_xref="GeneID:12728"
                     /db_xref="MGI:MGI:99486"
                     /translation="MAMWQGAMDNRGFHQGSFSSFQSSSSDEDLMDIPGTAMDFSMRD
                     DVPPLDREIEGNKSYNGGGIGSSNRVMDFLEEPIPGVGTYDDFNTIDWVREKSRDRDR
                     HREITNKSKESTWALIHSVSDAFSGWLLMLLIGLLSGSLAGLIDISAHWMTDLKEGIC
                     TGGFWFNHEHCCWNSEHVTFEHRDKCPEWNSWAQLIINTDQGAFAYIVNYFMYVLWAL
                     LFAFLAVSLVKAFAPYACGSGIPEIKTILSGFIIRGYLGKWTLVIKTITLVLAVSSGL
                     SLGKEGPLVHVACCCGNILCHCFNKYRKNEAKRREVLSAAAAAGVSVAFGAPIGGVLF
                     SLEEVSYYFPLKTLWRSFFAALVAAFTLRSINPFGNSRLVLFYVEFHTPWHLFELVPF
                     IVLGIFGGLWGALFIRTNIAWCRKRKTTQLGKYPVVEVLIVTAITAILAFPNEYTRMS
                     TSELISELFNDCGLLDSSKLCDYENHFNTSKGGELPDRPAGVGIYSAMWQLALTLILK
                     IVITIFTFGMKIPSGLFIPSMAVGAIAGRLLGVGMEQLAYYHHDWGIFNSWCSQGADC
                     ITPGLYAMVGAAACLGGVTRMTVSLVVIMFELTGGLEYIVPLMAAAMTSKWVADALGR
                     EGIYDAHIRLNGYPFLEAKEEFAHKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETII
                     SETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPMP
                     PYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDV
                     LKHIAQMANQDPDSILFN"
     exon            419..565
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            566..717
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            718..817
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            818..1005
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            1006..1128
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            1129..1335
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            1336..1416
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            1417..1959
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            1960..2146
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            2147..2545
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            2546..2762
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     exon            2763..4170
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3089..3094
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /note="hexamer: AACAAG"
     polyA_site      3109
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /note="major polyA site"
     regulatory      3476..3481
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
                     /note="hexamer: AGTAAA"
     polyA_site      3494
                     /gene="Clcn5"
                     /gene_synonym="5430408K11Rik; ClC-5; Clc4-1; Clc5;
                     Clcn4-1; D930009B12Rik; DXImx42e; Sfc13"
ORIGIN      
        1 gaggtgcctg gagcgggccc tccgtggcgc gcatgcgcag acgccgtctt ggcagagcta
       61 atactccaag gcgcctgtca catgagcctc gctcccgctc cgctccccct cctcccggct
      121 gggctgtgtg aatgaagctc tgccggctac gtggggcgct agctctactc gccgtgtgga
      181 acgccagagc cgactgagcg cgctgcccac cgccggtgga cacgggctcc gccgcgccgg
      241 acctcggtga caggtttggg gccttagaat cttgcagaaa gcagaatcac acacttgcat
      301 ctccatctat accctccttt aagtccccct ccaaaacttg ggggggggag cactggaaag
      361 ctctgagcct gtgaccccag tgtgggagaa gataggtaca agatggccat gtggcaggga
      421 gccatggata acagaggctt tcatcagggg agttttagta gcttccagag cagctctagt
      481 gatgaagact tgatggacat cccagggact gctatggact tctctatgag agatgacgtg
      541 ccgcctttag atcgagaaat agaagggaac aagtcataca atggtggtgg aataggctct
      601 tcaaatagag tcatggactt cttggaggag ccaatccctg gtgtagggac ctatgatgat
      661 ttcaacacaa ttgattgggt gagagagaaa tctcgagacc gagataggca ccgagagatt
      721 accaataaaa gcaaagagtc aacatgggcc ttaattcaca gtgtgagcga tgctttctct
      781 ggttggttgt taatgctcct tattggcctt ttatcaggtt ccttagctgg cctgatagac
      841 atctctgctc actggatgac agacttaaaa gaagggatat gtacaggggg gttctggttt
      901 aaccatgagc actgttgctg gaattctgag catgttacct ttgaacacag agacaaatgt
      961 ccagagtgga atagctgggc ccagctcatc atcaatacag atcagggagc ctttgcctac
     1021 atagtcaatt acttcatgta cgtcctctgg gctcttctgt ttgctttcct tgctgtatct
     1081 cttgtcaagg catttgcacc ttatgcctgt ggttctggaa tccctgagat caaaaccatc
     1141 ctgagtggtt tcattattag aggctatctg ggtaagtgga cccttgtcat caaaactatc
     1201 actttggtgt tggcggtgtc atctggcttg agcctgggca aggagggccc cctggtgcac
     1261 gtggcttgct gctgtgggaa catcttgtgc cactgcttca acaaataccg gaagaatgaa
     1321 gccaagcgga gagaggtctt atcagctgca gcggctgccg gtgtatctgt agcctttggg
     1381 gcccctattg gtggagtatt attcagcctg gaagaggtca gctactactt tcccctcaaa
     1441 acactatggc gttctttctt cgctgctctg gtggcagcgt tcacactccg ctccatcaat
     1501 ccattcggaa acagccgctt agttctgttt tatgtggagt tccacacccc gtggcatctc
     1561 tttgagctcg tgccattcat tgtactaggc atattcggtg gcctctgggg agctctgttt
     1621 atccgcacaa acattgcctg gtgtcggaag cgtaaaacca cacagttggg caagtatcct
     1681 gtcgtcgagg tactcattgt gacggccatc actgccatct tggctttccc caatgaatat
     1741 acccggatga gcacaagtga gctcatttct gagctgttca atgactgcgg cctcctggac
     1801 tcctccaagc tctgtgatta tgagaaccac ttcaacacaa gcaaaggcgg tgagctgcct
     1861 gacagacctg ctggcgtggg catctacagt gccatgtggc agctggctct gacactcata
     1921 ctgaaaatag tcattactat attcaccttt ggcatgaaga ttccttctgg tctctttatc
     1981 cccagcatgg ctgtcggtgc tatagcaggc cgtcttttag gagtcggaat ggagcaactg
     2041 gcttattacc accacgactg gggcatcttc aatagctggt gtagtcaggg agctgattgt
     2101 atcacccctg gcctttatgc catggttggg gctgctgcct gcttaggtgg ggtgactcgg
     2161 atgactgttt ctcttgttgt cataatgttt gaactgactg gtggcctgga atatattgtg
     2221 cctctgatgg ctgcagctat gacaagcaag tgggtggccg atgctcttgg gcgagagggc
     2281 atttatgatg cccacatccg tctcaatgga tacccctttc ttgaagccaa agaagaattt
     2341 gctcataaga ctctggcaat ggatgtgatg aagccccgga gaaatgaccc cttgctgact
     2401 gtccttactc aggacagtat gactgtggag gatgtcgaga ccataatcag cgaaaccacg
     2461 tacagtggct ttccggtggt agtgtcccga gagtcgcaaa gacttgtagg ctttgttctt
     2521 cgaagagatc tcattatttc aattgaaaat gctcggaaga aacaggacgg ggttgtgagc
     2581 acttccatca tttatttcac ggagcattcg cctccaatgc ctccatacac cccacctacc
     2641 ctgaagcttc ggaacatcct ggacctcagc cccttcactg tgacagacct tacgccaatg
     2701 gagatcgtgg tggacatctt ccgcaagctg ggcctgcgcc agtgcctggt tacacacaac
     2761 gggcgcttac ttggaatcat caccaaaaag gatgtgttaa agcatatagc acagatggca
     2821 aaccaagacc ctgattccat tctcttcaac tagaatcatg ggcttgttgt ggatataaaa
     2881 caaggacatt gcggaccatg gatatatttt attaactggg tacccaaaac acatttccca
     2941 tatttggatg gtgaagtcat attagtgtgt tgtctgtttc ctacaagtta atcagttgca
     3001 ctacataatt tctggaaaat aatctcttta ggagaaaata cagttaggct tctgtgatac
     3061 tgcattagga agggttcacg aaagagtaaa caagatggct acggtttaat tatgtttgtt
     3121 ctttaaaata gttttttttt aatttaaaaa taatcgttag ccaatatgca atcactgaaa
     3181 actatgcaag aaaaattcca actattctga caaatagcct gcaggaaact catggtaaaa
     3241 aatcctgtgt tggagggaga ctaaactgtc attgatggga aatgaagtgt gacctaaggg
     3301 gctttgcctt tgaagccaca gaaaggcaag ccagaaggaa atcgcaatgg cattttctag
     3361 actgtgaaga ttcacttcaa ttcttactcc tgttacagta tttagcgtta ttagtttgtt
     3421 acgtttacct tctcatcaga agacagtgct gctttggtct gtctgcccca agtgaagtaa
     3481 aggggttgac tttgggggcc tgcttggctt ggtcttttga agtgcacaaa gttaagttac
     3541 agagctttct ccttggccga agaaaggcta cttttccaaa tggcaatgct aactagtaga
     3601 cgaggacttt gttagaaatc tgttagtagc taggaaccat ttattccagt tttcttgaaa
     3661 tgaagataag ttctgagcaa aagtcggtgg ctaggaatgt cacgttgtgt gaagtcctaa
     3721 gccaatctca tacccagatg ccacttccac agatgctcct gcttcaggct tctggaataa
     3781 gaacagtatc tggaactggg tctaggctga atactgggaa agtggggaaa attcagagct
     3841 acattagcat cccggtgcat ttctttgaaa agaccaccag tactaaaata actggacgcc
     3901 tgtgctccac tcggtgtgga gtatgcacaa caggccattg ttcctgtgag catgaagcaa
     3961 gcttgagata cttccacgtg tatggaagga actggaacgg gttaggcaac tgcaattacc
     4021 ttgaggtgcc atccttagaa acctaactaa aatgcagagc catccttaaa cctaggtgta
     4081 gggatgaggc ctgatgacac caaaggtgct tgtacccagt taaaaaaaaa aggtgcctgt
     4141 ctcaatttcc taccacatct gtggcagttt
//
