LOCUS       NM_001357102            4955 bp    mRNA    linear   ROD 13-JUN-2024
DEFINITION  Mus musculus chloride channel, voltage-sensitive 4 (Clcn4),
            transcript variant 6, mRNA.
ACCESSION   NM_001357102 XM_011250426
VERSION     NM_001357102.2
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 4955)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4955)
  AUTHORS   Weinert,S., Gimber,N., Deuschel,D., Stuhlmann,T., Puchkov,D.,
            Farsi,Z., Ludwig,C.F., Novarino,G., Lopez-Cayuqueo,K.I.,
            Planells-Cases,R. and Jentsch,T.J.
  TITLE     Uncoupling endosomal CLC chloride/proton exchange causes severe
            neurodegeneration
  JOURNAL   EMBO J 39 (9), e103358 (2020)
   PUBMED   32118314
  REMARK    GeneRIF: Uncoupling endosomal CLC chloride/proton exchange causes
            severe neurodegeneration.
REFERENCE   3  (bases 1 to 4955)
  AUTHORS   Slaats,G.G., Wheway,G., Foletto,V., Szymanska,K., van Balkom,B.W.,
            Logister,I., Den Ouden,K., Keijzer-Veen,M.G., Lilien,M.R.,
            Knoers,N.V., Johnson,C.A. and Giles,R.H.
  TITLE     Screen-based identification and validation of four new ion channels
            as regulators of renal ciliogenesis
  JOURNAL   J Cell Sci 128 (24), 4550-4559 (2015)
   PUBMED   26546361
REFERENCE   4  (bases 1 to 4955)
  AUTHORS   Hirst,C.S., Foong,J.P., Stamp,L.A., Fegan,E., Dent,S., Cooper,E.C.,
            Lomax,A.E., Anderson,C.R., Bornstein,J.C., Young,H.M. and
            McKeown,S.J.
  TITLE     Ion channel expression in the developing enteric nervous system
  JOURNAL   PLoS One 10 (3), e0123436 (2015)
   PUBMED   25798587
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4955)
  AUTHORS   Arnaiz,I., Johnson,M.H., Cook,D.I. and Day,M.L.
  TITLE     Changing expression of chloride channels during preimplantation
            mouse development
  JOURNAL   Reproduction 145 (1), 73-84 (2013)
   PUBMED   23115349
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4955)
  AUTHORS   Carninci,P., Waki,K., Shiraki,T., Konno,H., Shibata,K., Itoh,M.,
            Aizawa,K., Arakawa,T., Ishii,Y., Sasaki,D., Bono,H., Kondo,S.,
            Sugahara,Y., Saito,R., Osato,N., Fukuda,S., Sato,K., Watahiki,A.,
            Hirozane-Kishikawa,T., Nakamura,M., Shibata,Y., Yasunishi,A.,
            Kikuchi,N., Yoshiki,A., Kusakabe,M., Gustincich,S., Beisel,K.,
            Pavan,W., Aidinis,V., Nakagawara,A., Held,W.A., Iwata,H., Kono,T.,
            Nakauchi,H., Lyons,P., Wells,C., Hume,D.A., Fagiolini,M.,
            Hensch,T.K., Brinkmeier,M., Camper,S., Hirota,J., Mombaerts,P.,
            Muramatsu,M., Okazaki,Y., Kawai,J. and Hayashizaki,Y.
  TITLE     Targeting a complex transcriptome: the construction of the mouse
            full-length cDNA encyclopedia
  JOURNAL   Genome Res 13 (6B), 1273-1289 (2003)
   PUBMED   12819125
REFERENCE   7  (bases 1 to 4955)
  AUTHORS   Adler,D.A., Rugarli,E.I., Lingenfelter,P.A., Tsuchiya,K.,
            Poslinski,D., Liggitt,H.D., Chapman,V.M., Elliott,R.W., Ballabio,A.
            and Disteche,C.M.
  TITLE     Evidence of evolutionary up-regulation of the single active X
            chromosome in mammals based on Clc4 expression levels in Mus
            spretus and Mus musculus
  JOURNAL   Proc Natl Acad Sci U S A 94 (17), 9244-9248 (1997)
   PUBMED   9256467
REFERENCE   8  (bases 1 to 4955)
  AUTHORS   Kubagawa,H., Burrows,P.D. and Cooper,M.D.
  TITLE     A novel pair of immunoglobulin-like receptors expressed by B cells
            and myeloid cells
  JOURNAL   Proc Natl Acad Sci U S A 94 (10), 5261-5266 (1997)
   PUBMED   9144225
REFERENCE   9  (bases 1 to 4955)
  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   10 (bases 1 to 4955)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC149056.6.
            
            On Sep 27, 2022 this sequence version replaced NM_001357102.1.
            
            Transcript Variant: This variant (6) differs in the 5' UTR,
            compared to variant 1, and encodes isoform 1. Variants 1, 6, 7, and
            9-11 all encode the same isoform (1).
            
            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 :: AK035804.1, SRR13422597.354058.1
                                           [ECO:0000332]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-786               AC149056.6         60237-61022         c
            787-941             AC149056.6         58269-58423         c
            942-1041            AC149056.6         57515-57614         c
            1042-1229           AC149056.6         56541-56728         c
            1230-1352           AC149056.6         56278-56400         c
            1353-1559           AC149056.6         55460-55666         c
            1560-1640           AC149056.6         54583-54663         c
            1641-2186           AC149056.6         52956-53501         c
            2187-2373           AC149056.6         51944-52130         c
            2374-2772           AC149056.6         50420-50818         c
            2773-2989           AC149056.6         49191-49407         c
            2990-4955           AC149056.6         43854-45819         c
FEATURES             Location/Qualifiers
     source          1..4955
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 4.23 cM"
     gene            1..4955
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /note="chloride channel, voltage-sensitive 4"
                     /db_xref="GeneID:12727"
                     /db_xref="MGI:MGI:104571"
     exon            1..786
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            787..941
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            942..1041
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1042..1229
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1230..1352
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1353..1559
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1560..1640
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1641..2186
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2187..2373
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2374..2772
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2773..2989
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2990..4955
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4930..4935
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /note="hexamer: ATTAAA"
     polyA_site      4955
                     /gene="Clcn4"
                     /gene_synonym="clC-4; Clc4-2; Clcn4-2"
                     /note="major polyA site"
ORIGIN      
        1 agagactgga gagaaacgga atcacagaca cacattttgt ttaaatggtc taaactgcct
       61 gtttggtggc atttagaagc accacgcctg agttctgtgc ctagagaaac acagctctct
      121 tgaaaacaaa acaacaacaa caacaacaac aacaacaaca acaaaactgt cccggatgag
      181 gaaggcattt aagtcatttc agccaagctg aacacggaga cagggggatg acgctgagtg
      241 agcaagtaga ggcgaggcgc ggcctcgtgc gggtttaggt cagcgcgcag gggacagagt
      301 gaaggacaca cagcgcctcg tagccggagg ccgaggcggg cagcgaagtg gccgagggca
      361 gggcggctgc agcgggcggc ggtgccaagt aggcgggcag tgattttctg aggcaggggg
      421 atgacactga gtgagtttat gaggcaaggg gatgaccgcg agtgactgtc tgaggcaggg
      481 ggatgacact gagtgatttc ctgaggcagg gggttgaccg cgagtgactg tgtgaggcag
      541 ggggatgact gtgagtgatt ttgtcacagt caaagcccct gcctcgtgac agctttccca
      601 gtgtcgtggc agcaccatcg cctgcctgtt ctcttcttca gacacttgcc ccgccccgcc
      661 tgcctgcctg tcacccgcct cgcgatgacg tcacacgacc tgccgcagac agccgcgctg
      721 aagagaggag gatgatctag gacgctgtcc gggtggacgg ccacgccgca agacgcggcc
      781 ctgcaggagt gactagcacg gtcagggcgg gagccacgag cgcctctggg aacctcatgg
      841 acttcctcga ggagcccttc cctgacgtgg ggacctacga ggacttccac accatagact
      901 ggctgaggga aaagtcccgg gataccgaca gacataggaa gatcaccagc aaaagtaagg
      961 agtctatttg ggagttcatc aagagcctgc tggacgcgtg gtcgggatgg gtggtgatgc
     1021 tactcattgg gctgctggca ggtaccttgg ctggagtcat cgatctcgct gtggattgga
     1081 tgacggacct caaggagggg gtctgtctgt ccgcattctg gtacagccat gaacagtgct
     1141 gttggacctc caacgagacc acttttgagg acagggacaa gtgtcccctg tggcagaagt
     1201 ggtcagagct tcttctgagc cagtcagagg gcgccagcgc ttacattctg aattacttaa
     1261 tgtacattct atgggcgttg ctgtttgcat ttctggctgt ctccctggta cgtgtgttcg
     1321 caccgtatgc ctgtggctct ggcatacccg agataaagac tattttgagt ggctttatca
     1381 tcaggggata cttggggaaa tggactcttc taatcaagac tgtcaccctc gtgctcgtcg
     1441 tatcctctgg cctgagcctt ggcaaagagg gcccactggt gcatgtggca tgttgctgtg
     1501 gcaacttctt cagcagcctt ttctccaagt atagcaagaa tgaaggcaag aggcgtgagg
     1561 tgctttcagc tgcagctgct gctggtgtct ctgtggcctt tggtgctccg ataggaggtg
     1621 tgctcttcag tctagaggag gtcagttact actttccctt gaaaaccttg tggaggtcat
     1681 tctttgcagc cctggtggct gccttcacac tgcgctccat caaccccttt ggaaatagcc
     1741 gcctggttct cttttatgtg gagtatcata caccctggta catggctgaa ctcttccctt
     1801 tcatcctgct tggagtcttt gggggtttat ggggaaccct cttcacacgc tgcaacattg
     1861 cttggtgcag gaggcgtaag accaccaggc tgggcaggta cccagtgttg gaggttattg
     1921 cggtgacagc cgtcaccgcc atcgtggcct accccaatcc ctacactcgc cagagcacca
     1981 gtgagctcat ctctgagctc ttcaacgatt gtggggctct cgagtcttct cagctctgtg
     2041 actacatcaa cgaccccaac atgactcggc ctgtggatga cattccggac cggccggctg
     2101 gggttggagt ttacacagcc atgtggcagc tggccttggc actgatcttc aaaatagtca
     2161 ttactatatt tacctttggc atgaagattc cctcaggtct cttcatcccc agtatggctg
     2221 tcggagccat ggcaggccgg atggtgggaa tcggtgtgga gcagctggcc taccatcacc
     2281 atgactggat catcttcagg aactggtgca ggcctggagc ggactgtgtc acaccagggc
     2341 tttatgcgat ggtgggagct gcagcctgtc taggtggggt gactaggatg acagtgtctc
     2401 tagtggtcat tatgtttgaa ctgactggag gtctggagta tattgtaccc ctgatggcag
     2461 ctgctgtcac cagcaagtgg gtggctgatg cctttgggaa agaagggatt tatgaagccc
     2521 acatccatct gaatgggtac ccatttcttg atgtgaagga tgagttcacc caccgtacgc
     2581 tggccactga tgtgatgcgg ccccggaggg gagaaccgcc attatcggta ctaacccagg
     2641 acagcatgac tgtggaggac gtggagactc tcatcaagga gacagactac aacggctttc
     2701 ctgtgctcgt ctccagagac tcggagcgtc tcatcgggtt tgcccagagg cgggagctaa
     2761 tcttggctat aaaaaatgcc aggcagaggc aagagggcat tgtgagcaat tccatcatgt
     2821 acttcacaga ggagcctcct gagctgcctg ccaacagccc acatccactg aagctgaggc
     2881 gcattttgaa cctgagccct ttcacggtca cagatcacac ccccatggag acggtggtgg
     2941 acattttccg gaaactgggg ctccgacaat gcctggtgac acggagtggg agacttcttg
     3001 ggatcatcac aaaaaaggat gttctgagac acatggccca gatggcaaac caggaccctg
     3061 aatccatcat gtttaattag caataagatg ggcattattt tgagaagatc aataattata
     3121 tcatttttaa agaaataacc aagtgataca ttatgatcct aatgaaaaaa cttgcactga
     3181 aggcagaaaa agaaaagaaa agaaaaaaag aaaaaaaaag aaagccttat ttgaatttga
     3241 aacgaggggg aaaagggtga aactttttta aaaggcaaaa accataaact agtagtcatt
     3301 ttatagcttt aacctcttat gagttcaaag ctgtgtttct taataaattt attaactgct
     3361 tttggggtat gtgggagggt gtaaatgaca tgaattatac aaagacatgg aacacaggaa
     3421 acattggcac atttactcaa ggttgatatt cgtaattttg gagtacacat gaagctttga
     3481 gtccaaaaga caaaggggta ttcgcatgct actgttagat attggttcct aaaattttgc
     3541 tatgatgtta cggaatcata ttgaagatat tgcattcaga gaaaagaaaa ttaaagttgg
     3601 atgcagtgaa agctacaagc aggccctaat aggtggtcta ctcatggcca tctcatttct
     3661 tgcctttgtt ctcaagcctg ttgttatgtt tctttatcag tctgcaccag attcagtagt
     3721 gcccaccata atgagcatga agtgaaagac ttctcgacag aagacttcaa gactggacta
     3781 aatgtttgga ctatgaacca tgtagttcta tgtggacatt tctcttataa aaggggacac
     3841 atttttactt tgaggggaca cttgcgtcat cactgatttg caagcccaaa gcatcaattt
     3901 cacttattta tatggttact tgtgcatttg acgtattgat tagtccagca cttcccatgg
     3961 attattgccc gtgtgctcct agattgctgt agtgtggttt tgtttctaag tagcatgtgc
     4021 aatacttaaa accagctatc cagtgtttct acttaacttt cttctcaggt cttccagata
     4081 gagccatgat gagagtgagg catatgagtt ctcagtggga actcctccaa atggattaca
     4141 agagaaatag taaattgatt ctaaatctgt tccattctct tccctgtagg atataaaatg
     4201 tccagtttta acgcctaagc atggactttc aaactagcaa tcacagcgcg ggacagagtc
     4261 acattttata cagccaattg aagcactggg tctctttgtg tttgaactta atggcaattt
     4321 tattctttaa attctgcaca tctgtctttt cttcaggaag gaattagtgt ttcaggccca
     4381 tcgcatgatc tgtgtaagat ttgtgtcact tgccatttca cttcatcttt gcccctcact
     4441 tttcactgag tcatcctcct ccttttcaat cttactgtca ttgggtatcg ttgaatcacg
     4501 tatgtgcact tgactgtatg taatagatcc tgacagtgca cctaagaaac ctgggacatg
     4561 gccagtccag gactgtctct acactattgc cagggttcca aattcttctg gtatttcatt
     4621 ttccctcttc ttattctctg tcctctggct tactgcctca tagttgtaaa attgttgccc
     4681 agatgccagg tgcgatgtct actttctgtg agggaaggag ggggagaggc gagtacgaag
     4741 atgaatgtgt atatctttcc cagagatgcg cagcatacaa ccattggctg gaaatctgtt
     4801 atatgcccca ttcgcctaga tgtctgtaaa tacaggaagg aaaattgttt tagctataca
     4861 ttataacaca ttactttctg gatggaattt cgattctgtg gatagggaag tgggattggt
     4921 atctgtcata ttaaattcca acatcatgtc cctgc
//
