LOCUS       NM_001293               2982 bp    mRNA    linear   PRI 27-APR-2025
DEFINITION  Homo sapiens chloride nucleotide-sensitive channel 1A (CLNS1A),
            transcript variant 1, mRNA.
ACCESSION   NM_001293
VERSION     NM_001293.3
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 2982)
  AUTHORS   Cui,Z., He,J., Zhu,J., Ni,W., Liu,L., Bian,Z., Mao,S., Gu,S.,
            Shan,Y., Chu,Z., Wu,Q., Lu,J., Liu,Y., Sun,F., Pan,Q., Zhang,Y.,
            Huang,N. and Ma,J.
  TITLE     O-GlcNAcylated LARP1 positively regulated by circCLNS1A facilitates
            hepatoblastoma progression through DKK4/beta-catenin signalling
  JOURNAL   Clin Transl Med 13 (4), e1239 (2023)
   PUBMED   37070251
  REMARK    GeneRIF: O-GlcNAcylated LARP1 positively regulated by circCLNS1A
            facilitates hepatoblastoma progression through DKK4/beta-catenin
            signalling.
REFERENCE   2  (bases 1 to 2982)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   3  (bases 1 to 2982)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   4  (bases 1 to 2982)
  AUTHORS   Beketova,E., Fang,S., Owens,J.L., Liu,S., Chen,X., Zhang,Q.,
            Asberry,A.M., Deng,X., Malola,J., Huang,J., Li,C., Pili,R.,
            Elzey,B.D., Ratliff,T.L., Wan,J. and Hu,C.D.
  TITLE     Protein Arginine Methyltransferase 5 Promotes pICln-Dependent
            Androgen Receptor Transcription in Castration-Resistant Prostate
            Cancer
  JOURNAL   Cancer Res 80 (22), 4904-4917 (2020)
   PUBMED   32999000
  REMARK    GeneRIF: Protein Arginine Methyltransferase 5 Promotes
            pICln-Dependent Androgen Receptor Transcription in
            Castration-Resistant Prostate Cancer.
REFERENCE   5  (bases 1 to 2982)
  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   6  (bases 1 to 2982)
  AUTHORS   Schwartz,R.S., Rybicki,A.C. and Nagel,R.L.
  TITLE     Molecular cloning and expression of a chloride channel-associated
            protein pICln in human young red blood cells: association with
            actin
  JOURNAL   Biochem J 327 (Pt 2) (Pt 2), 609-616 (1997)
   PUBMED   9359436
REFERENCE   7  (bases 1 to 2982)
  AUTHORS   Bekri,S., Adelaide,J., Merscher,S., Grosgeorge,J., Caroli-Bosc,F.,
            Perucca-Lostanlen,D., Kelley,P.M., Pebusque,M.J., Theillet,C.,
            Birnbaum,D. and Gaudray,P.
  TITLE     Detailed map of a region commonly amplified at 11q13-->q14 in human
            breast carcinoma
  JOURNAL   Cytogenet Cell Genet 79 (1-2), 125-131 (1997)
   PUBMED   9533029
REFERENCE   8  (bases 1 to 2982)
  AUTHORS   Nagl,U.O., Erdel,M., Schmarda,A., Seri,M., Pinggera,G.M.,
            Gschwentner,M., Duba,C., Galietta,L.J., Deetjen,P., Utermann,G. and
            Paulmichl,M.
  TITLE     Chromosomal localization of the genes (CLNS1A and CLNS1B) coding
            for the swelling-dependent chloride channel ICln
  JOURNAL   Genomics 38 (3), 438-441 (1996)
   PUBMED   8975725
REFERENCE   9  (bases 1 to 2982)
  AUTHORS   Buyse,G., de Greef,C., Raeymaekers,L., Droogmans,G., Nilius,B. and
            Eggermont,J.
  TITLE     The ubiquitously expressed pICln protein forms homomeric complexes
            in vitro
  JOURNAL   Biochem Biophys Res Commun 218 (3), 822-827 (1996)
   PUBMED   8579598
REFERENCE   10 (bases 1 to 2982)
  AUTHORS   Anguita,J., Chalfant,M.L., Civan,M.M. and Coca-Prados,M.
  TITLE     Molecular cloning of the human volume-sensitive chloride
            conductance regulatory protein, pICln, from ocular ciliary
            epithelium
  JOURNAL   Biochem Biophys Res Commun 208 (1), 89-95 (1995)
   PUBMED   7887970
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA004269.1, AF005422.1,
            AA757599.1 and AP000609.5.
            
            On May 17, 2019 this sequence version replaced NM_001293.2.
            
            Summary: This gene encodes a protein that functions in multiple
            regulatory pathways. The encoded protein complexes with numerous
            cytosolic proteins and performs diverse functions including
            regulation of small nuclear ribonucleoprotein biosynthesis,
            platelet activation and cytoskeletal organization. The protein is
            also found associated with the plasma membrane where it functions
            as a chloride current regulator. Pseudogenes of this gene are found
            on chromosomes 1, 4 and 6. Several transcript variants encoding
            different isoforms have been found for this gene. [provided by
            RefSeq, Jul 2015].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (a). Variants 1 and 2
            both encode the same 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 :: CD387529.1, U53454.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1968189,
                                           SAMEA1968968 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000525428.6/ ENSP00000433919.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-50                DA004269.1         13-62
            51-1295             AF005422.1         1-1245
            1296-1361           AA757599.1         6-71                c
            1362-2982           AP000609.5         10549-12169         c
FEATURES             Location/Qualifiers
     source          1..2982
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q14.1"
     gene            1..2982
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /note="chloride nucleotide-sensitive channel 1A"
                     /db_xref="GeneID:1207"
                     /db_xref="HGNC:HGNC:2080"
                     /db_xref="MIM:602158"
     exon            1..205
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     CDS             81..794
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /note="isoform a is encoded by transcript variant 1;
                     chloride channel regulatory protein; reticulocyte protein
                     ICln; chloride ion current inducer protein; methylosome
                     subunit pICln; i(Cln); reticulocyte pICln; chloride
                     channel, nucleotide sensitive 1A; chloride conductance
                     regulatory protein ICln"
                     /codon_start=1
                     /product="methylosome subunit pICln isoform a"
                     /protein_id="NP_001284.1"
                     /db_xref="CCDS:CCDS8252.1"
                     /db_xref="GeneID:1207"
                     /db_xref="HGNC:HGNC:2080"
                     /db_xref="MIM:602158"
                     /translation="MSFLKSFPPPGPAEGLLRQQPDTEAVLNGKGLGTGTLYIAESRL
                     SWLDGSGLGFSLEYPTISLHALSRDRSDCLGEHLYVMVNAKFEEESKEPVADEEEEDS
                     DDDVEPITEFRFVPSDKSALEAMFTAMCECQALHPDPEDEDSDDYDGEEYDVEAHEQG
                     QGDIPTFYTYEEGLSHLTAEGQATLERLEGMLSQSVSSQYNMAGVRTEDSIRDYEDGM
                     EVDTTPTVAGQFEDADVDH"
     exon            206..342
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     exon            343..444
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     exon            445..552
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     exon            553..726
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     exon            727..816
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     exon            817..2982
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1338..1343
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /note="hexamer: AATAAA"
     polyA_site      1361
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /note="major polyA site"
     regulatory      1412..1417
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
                     /note="hexamer: AATAAT"
     polyA_site      1431
                     /gene="CLNS1A"
                     /gene_synonym="CLCI; CLNS1B; ICln"
ORIGIN      
        1 ctcttccagg gcgggcggtg tggtgcacgc attgctgtgc tccaactccc tcagggcctg
       61 tgttgccgca ctctgctgct atgagcttcc tcaaaagttt cccgccgcct gggccagcgg
      121 aggggctcct gcggcagcag ccagacactg aggctgtgct gaacgggaag ggcctcggca
      181 ctggtaccct ttacatcgct gagagccgcc tgtcttggtt agatggctct ggattaggat
      241 tctcactgga ataccccacc attagtttac atgcattatc cagggaccga agtgactgtc
      301 taggagagca tttgtatgtt atggtgaatg ccaaatttga agaagaatca aaagaacctg
      361 ttgctgatga agaagaggaa gacagtgatg atgatgttga acctattact gaatttagat
      421 ttgtgcctag tgataaatca gcgttggagg caatgttcac tgcaatgtgc gaatgccagg
      481 ccttgcatcc agatcctgag gatgaggatt cagatgacta cgatggagaa gaatatgatg
      541 tggaagcaca tgaacaagga cagggggaca tccctacatt ttacacctat gaagaaggat
      601 tatcccatct aacagcagaa ggccaagcca cactggagag attagaagga atgctttctc
      661 agtctgtgag cagccagtat aatatggctg gggtcaggac agaagattca ataagagatt
      721 atgaagatgg gatggaggtg gataccacac caacagttgc tggacagttt gaggatgcag
      781 atgttgatca ctgaaaatga tttatgcaag tttaagattc tgctcctaag tgtaggagag
      841 aacttggtgc ctcttccact ctggagtgaa gttaatgaaa gtctttttcc ttttccaaaa
      901 cccaacctga accagttctt tcttgagaca gactatactg agacaacaag ttgtcaccag
      961 cagaagatag ataatatgac ctttattaac ttgatgaatt aacttaacca agagggtatt
     1021 tgtagtttac tatttaccct aaaactttct gtgtctgggt accctctgag taggcctata
     1081 attcctacct tgactgtgtg catcatttgt aagctagcag atctatgtgg tgaaaatgca
     1141 caggagcttg gtagactgcg ggggaaagag agagctcctt tcgccatgtt ttaccagtct
     1201 gctgttataa cctcttaggt tgtatccttt aatttccagc cttttaggtt agtttctgta
     1261 acagaacaag tgagtctggg atgaagtcct caaagtactt caaatggtaa ttgttttgtt
     1321 tttgtaatag cttaacaaat aaacctaggt tttctatatt actttgctct cattcttgac
     1381 taaaaccatt aatgagaaat gttttttaaa aaataatgct ggcaaatatg agaattttgt
     1441 tggctttatt tttgtttact tgttgagaag atgaacatga aattaataag aaaatatagt
     1501 tatagcttct ggcaagtatt tagtaaggca aagatttaac acatttcagg ggatttctgc
     1561 cacttccttt tagatcagca gtaatttctt atatttatca actctcaatt tttagttttc
     1621 atagatacct gggtattata aggctgattt gtaattactg atttatactt ggacttttga
     1681 aatcattatg tgtccttaaa aataaggtta tacaagctaa ccttcttaac aggatcacat
     1741 ggctaattag tgactaaact gatgtttggt accactcagc ccagtgttca tttcagcact
     1801 gtcacttggt ttcccttatc ttgcaaggta gactgaaaaa aaacgaattt tcctttttct
     1861 aaccagactc tcagaatttc tgagtctgtt aacaataggc aagtaaaaca gccacttgaa
     1921 atggaaacta aaatttactg agacctctgt actagccact gtcctgagtt ctttattatg
     1981 tattataata ttcttaatta tcttatgaga tacgctttta tcccacttta tagttgagga
     2041 aactgagtta tagagagagg taaaataact tgcttaaggt catgtagata gtgaattgtg
     2101 atttttgagc ctgtgcttta aaacatcata cagccttacc acctaccagc agcagaaagc
     2161 atgcacactc tccccactgc tgcagggttt cagtgttaac atttcaatgg ccagtacaag
     2221 agcttcccca gtttctctgc tacccatctg agcaacaccc ataattctat cctagaagtt
     2281 tgtccattct tcagtaatca gtcaggacat tctcacaggc taatattaga aattccattt
     2341 gagttccttt taaaaggaac aaatttataa ttgtgacttt ccatgaacat aaattgctct
     2401 gatagcaaaa tgtcgagaag attcagagtg tacttggttt cttgttggtg ttgctgtggt
     2461 caatgcaata tgcaaaaagg caggagacca aagcatgtgg gcacctctct gggcttattt
     2521 cctcattaga ctaagtgact ttcaaagatt gagctgtaac attcactaga tagttagaac
     2581 cgtagcattg agaaaataga agctgagaaa aaagagcagg tcaggctttt aaaagataaa
     2641 atttataatg atcagccaga caatatttat tgatttcatt tgagcctaat tttagggttg
     2701 ctggaattgt tttctttgtg tgttcctgat gtagagacac tttaaaggta catagacatt
     2761 tcccctccaa aatgtaagtc atctaaatgt tcctaaaagc tagggttaat ggttctctgt
     2821 tctaggttct tcatttaaaa aatgtattca ttaagatatg gtcccagccg gacgtggtgg
     2881 ctcacacctg taatcccagc actttgggag gctcaggtgg gcagatcact tgaggtcagg
     2941 agtttgagac cagcctggcc aatacggtga aaacccatct ct
//
