LOCUS       NM_016929               5706 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens chloride intracellular channel 5 (CLIC5), transcript
            variant 2, mRNA.
ACCESSION   NM_016929
VERSION     NM_016929.5
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 5706)
  AUTHORS   Huang,Q., Lv,Q., Tang,W., Pan,Y., Xing,Y., He,M., Wu,H., Huang,J.,
            Huang,C., Lan,H., Chen,J. and Xiao,G.
  TITLE     A comprehensively prognostic and immunological analysis of chloride
            intracellular channel protein 5 (CLIC5) in pan-cancer and
            identification in ovarian cancer
  JOURNAL   J Cancer Res Clin Oncol 149 (12), 10561-10583 (2023)
   PUBMED   37286734
  REMARK    GeneRIF: A comprehensively prognostic and immunological analysis of
            chloride intracellular channel protein 5 (CLIC5) in pan-cancer and
            identification in ovarian cancer.
REFERENCE   2  (bases 1 to 5706)
  AUTHORS   Wonkam-Tingang,E., Schrauwen,I., Esoh,K.K., Bharadwaj,T.,
            Nouel-Saied,L.M., Acharya,A., Nasir,A., Adadey,S.M., Mowla,S.,
            Leal,S.M. and Wonkam,A.
  TITLE     Bi-Allelic Novel Variants in CLIC5 Identified in a Cameroonian
            Multiplex Family with Non-Syndromic Hearing Impairment
  JOURNAL   Genes (Basel) 11 (11), 1249 (2020)
   PUBMED   33114113
  REMARK    GeneRIF: Bi-Allelic Novel Variants in CLIC5 Identified in a
            Cameroonian Multiplex Family with Non-Syndromic Hearing Impairment.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 5706)
  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   4  (bases 1 to 5706)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Paulo,J.A., Cannon,J.R., Ting,L.,
            Baltier,K., Colby,G., Gebreab,F., Gygi,M.P., Parzen,H., Szpyt,J.,
            Tam,S., Zarraga,G., Pontano-Vaites,L., Swarup,S., White,A.E.,
            Schweppe,D.K., Rad,R., Erickson,B.K., Obar,R.A., Guruharsha,K.G.,
            Li,K., Artavanis-Tsakonas,S., Gygi,S.P. and Harper,J.W.
  TITLE     Architecture of the human interactome defines protein communities
            and disease networks
  JOURNAL   Nature 545 (7655), 505-509 (2017)
   PUBMED   28514442
REFERENCE   5  (bases 1 to 5706)
  AUTHORS   Tavasoli,M., Al-Momany,A., Wang,X., Li,L., Edwards,J.C. and
            Ballermann,B.J.
  TITLE     Both CLIC4 and CLIC5A activate ERM proteins in glomerular
            endothelium
  JOURNAL   Am J Physiol Renal Physiol 311 (5), F945-F957 (2016)
   PUBMED   27582103
REFERENCE   6  (bases 1 to 5706)
  AUTHORS   Edwards,J.C., Cohen,C., Xu,W. and Schlesinger,P.H.
  TITLE     c-Src control of chloride channel support for osteoclast HCl
            transport and bone resorption
  JOURNAL   J Biol Chem 281 (38), 28011-28022 (2006)
   PUBMED   16831863
REFERENCE   7  (bases 1 to 5706)
  AUTHORS   Berryman,M., Bruno,J., Price,J. and Edwards,J.C.
  TITLE     CLIC-5A functions as a chloride channel in vitro and associates
            with the cortical actin cytoskeleton in vitro and in vivo
  JOURNAL   J Biol Chem 279 (33), 34794-34801 (2004)
   PUBMED   15184393
  REMARK    GeneRIF: CLIC-5A has a role as a chloride channel in vitro and
            binds to cortical actin cytoskeleton
REFERENCE   8  (bases 1 to 5706)
  AUTHORS   Shanks,R.A., Larocca,M.C., Berryman,M., Edwards,J.C.,
            Urushidani,T., Navarre,J. and Goldenring,J.R.
  TITLE     AKAP350 at the Golgi apparatus. II. Association of AKAP350 with a
            novel chloride intracellular channel (CLIC) family member
  JOURNAL   J Biol Chem 277 (43), 40973-40980 (2002)
   PUBMED   12163479
  REMARK    GeneRIF: association with Golgi apparatus AKAP350
REFERENCE   9  (bases 1 to 5706)
  AUTHORS   Suzuki,T., Morita,R., Sugimoto,Y., Sugawara,T., Bai,D.S.,
            Alonso,M.E., Medina,M.T., Bailey,J.N., Rasmussen,A., Ramos-Peek,J.,
            Cordova,S., Rubio-Donnadieu,F., Ochoa,A., Jara-Prado,A.,
            Inazawa,J., Delgado-Escueta,A.V. and Yamakawa,K.
  TITLE     Identification and mutational analysis of candidate genes for
            juvenile myoclonic epilepsy on 6p11-p12: LRRC1, GCLC, KIAA0057 and
            CLIC5
  JOURNAL   Epilepsy Res 50 (3), 265-275 (2002)
   PUBMED   12200217
REFERENCE   10 (bases 1 to 5706)
  AUTHORS   Berryman,M. and Bretscher,A.
  TITLE     Identification of a novel member of the chloride intracellular
            channel gene family (CLIC5) that associates with the actin
            cytoskeleton of placental microvilli
  JOURNAL   Mol Biol Cell 11 (5), 1509-1521 (2000)
   PUBMED   10793131
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AK223130.1, BC035968.1,
            AL357057.20 and AL591211.2.
            This sequence is a reference standard in the RefSeqGene project.
            
            On May 28, 2019 this sequence version replaced NM_016929.4.
            
            Summary: This gene encodes a member of the chloride intracellular
            channel (CLIC) family of chloride ion channels. The encoded protein
            associates with actin-based cytoskeletal structures and may play a
            role in multiple processes including hair cell stereocilia
            formation, myoblast proliferation and glomerular podocyte and
            endothelial cell maintenance. Alternatively spliced transcript
            variants encoding multiple isoforms have been observed for this
            gene. [provided by RefSeq, Dec 2011].
            
            Transcript Variant: This variant (2) differs in the 5' UTR, lacks a
            portion of the 5' coding region and initiates translation at an
            alternate start codon, compared to variant 1. The encoded isoform
            (b, also known as CLIC5A) is shorter and has a distinct N-terminus,
            compared to isoform a.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript 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##
            RNAseq introns :: single sample supports all introns SAMN03267769
                              [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: inferred from homology
            MANE Ensembl match                 :: ENST00000339561.12/
                                                  ENSP00000344165.6
            RefSeq Select criteria             :: based on manual assertion,
                                                  conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 AK223130.1         1-3
            4-2268              BC035968.1         1-2265
            2269-3188           AL357057.20        101-1020            c
            3189-5706           AL591211.2         13922-16439         c
FEATURES             Location/Qualifiers
     source          1..5706
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.1"
     gene            1..5706
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /note="chloride intracellular channel 5"
                     /db_xref="GeneID:53405"
                     /db_xref="HGNC:HGNC:13517"
                     /db_xref="MIM:607293"
     exon            1..381
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /inference="alignment:Splign:2.1.0"
     CDS             319..1074
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /note="isoform b is encoded by transcript variant 2;
                     chloride intracellular channel protein 5;
                     glutaredoxin-like oxidoreductase CLIC5"
                     /codon_start=1
                     /product="chloride intracellular channel protein 5 isoform
                     b"
                     /protein_id="NP_058625.2"
                     /db_xref="CCDS:CCDS4914.1"
                     /db_xref="GeneID:53405"
                     /db_xref="HGNC:HGNC:13517"
                     /db_xref="MIM:607293"
                     /translation="MTDSATANGDDRDPEIELFVKAGIDGESIGNCPFSQRLFMILWL
                     KGVVFNVTTVDLKRKPADLHNLAPGTHPPFLTFNGDVKTDVNKIEEFLEETLTPEKYP
                     KLAAKHRESNTAGIDIFSKFSAYIKNTKQQNNAALERGLTKALKKLDDYLNTPLPEEI
                     DANTCGEDKGSRRKFLDGDELTLADCNLLPKLHVVKIVAKKYRNYDIPAEMTGLWRYL
                     KNAYARDEFTNTCAADSEIELAYADVAKRLSRS"
     exon            382..491
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /inference="alignment:Splign:2.1.0"
     exon            492..617
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /inference="alignment:Splign:2.1.0"
     exon            618..724
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /inference="alignment:Splign:2.1.0"
     exon            725..906
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /inference="alignment:Splign:2.1.0"
     exon            907..5706
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /inference="alignment:Splign:2.1.0"
     regulatory      5679..5684
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /note="hexamer: AATAAA"
     polyA_site      5706
                     /gene="CLIC5"
                     /gene_synonym="DFNB102; DFNB103; MST130; MSTP130"
                     /note="major polyA site"
ORIGIN      
        1 gctgacagtc gcggatcctg tgacacctcc gggcagcccg gcacttgttg ctcccacgac
       61 ctgttgtcat tcccttaacc cggctttccc cgtggccccc cgcctcctcc cggcttcgct
      121 ccttttcatg tgagcatctg ggacactgat ctctcagacc ccgctgctcg ggctggagaa
      181 tagatggttt tgtgaaaaat taaacaccgc cctgaagagg agccccgctg ggcagcggca
      241 ggagcgcaga gtgctggccc aggtgctgca gaggtggcgc ctccccggcc cgggacggta
      301 gccccgggcg ccaacggcat gacagactcg gcgacagcta acggggacga cagggacccc
      361 gagatcgagc tctttgtgaa ggctggaatc gatggagaaa gcatcggcaa ctgtcctttc
      421 tctcagcgcc tcttcatgat cctctggctg aaaggagtcg tgttcaatgt caccactgtg
      481 gatctgaaaa gaaagccagc tgacctgcac aacctagccc ccggcacgca cccgcccttc
      541 ctgaccttca acggggacgt gaagacagac gtcaataaga tcgaggagtt cctggaggag
      601 accttgaccc ctgaaaagta ccccaaactg gctgcaaaac accgggaatc caacacagcg
      661 ggcatcgaca tcttttccaa gttttctgcc tacatcaaaa ataccaagca gcagaacaat
      721 gctgctcttg aaagaggcct aaccaaggct ctaaagaaat tggatgacta cctgaacacc
      781 cctctaccag aggagattga cgccaacact tgtggggaag acaaggggtc ccggcgcaag
      841 ttcctggatg gggatgagct gaccctggct gactgcaatc tgttgcccaa gctccatgtg
      901 gtcaagattg tggccaagaa ataccgcaac tatgatatcc cggctgagat gacaggcctg
      961 tggcggtacc tcaagaacgc ctatgcccgt gatgagttca ccaacacctg tgcagctgac
     1021 agtgagatcg agttggccta cgctgatgtc gccaaacgcc tcagccgatc ctgagcacag
     1081 ccattttgcc ccatccccgc tgcagaagga ctcaaccact cccctaagac tccagcttca
     1141 tagactcctc tgtatcactg ccttgaggcg cactttttat aatcaagcct catcttgctg
     1201 gtatcatggg aactccagcc tgctatcttt catgaaggtc agcaccatcc ctggcctcct
     1261 cacataggaa tctagcagaa atgatagaca cagtccacct ttcggccggc cagcctgatc
     1321 tgggctcagc atgtttgggg tcagtcagtg ttggagagcc cacatatggg attgccacta
     1381 gcttcttctg ccaatatcaa aataccttct cagatgcttt agaaacatgc aacaccaact
     1441 ccttttctac cctcctctcc gtccatacct acaaggccaa ggacaaacgc catcttcatc
     1501 cttcttagaa agagatctat taccccatta ggggagacag agagagtgaa tggaggagta
     1561 ccgagctggc tatggacttg ggtgtctggc aaacacagct tcagtctcac tacttctgac
     1621 actctggtta ttgggcacta agggccagac tggaaagtca cttgagacac attctcagtt
     1681 tgttgcagtg ccaggaatgc tgcgctgctg ctgctgcgca cctggcccat gctgtccctg
     1741 gcttccatgc cgtccaggcc ctgccagaaa aggaaattgg catgcaattc taaactgcag
     1801 tgactgggat gggaggggag gggagcagtg ttgatgccaa aatacccacg gggtctacca
     1861 gccatggggt ttgcttgctt aggagtagtt gtttcagagg tgattacagg cctgggtttg
     1921 actgtgctta ccaatgagtg gtttttgagc tatgagaaag tggatgggag tgggaggagg
     1981 agagatgggt gaagacaaaa gagttcttta tgagcctcga tgttccctgg taaactttta
     2041 aaaaggcctt ctctcatgat ctaagtcttg gactggtggc atcatgtaac tgctaacctt
     2101 acagtaaaaa cccaagaatg ggtcaaaaat gtcttcccag tttctccaag ctgcttctgg
     2161 aatgcaggtc tgtcggctgg gtgctctcca gcagctgctc ctgcctgatt caactgtagc
     2221 ctgtaatggg taaaagccac atttaggagg tggtctgatc atagaacacc ttaggaagaa
     2281 agtccatgag actttctgac taggaaacca tgtggtttga acttgaagaa aaatgtagac
     2341 ccatctgggt taattttcct acaatctgac tcaactgcca ggtgaaaaaa aaaaggaaaa
     2401 atttttaagc taatatttca ctcttttgtc attctcctta agtttcatct cctaaaaagc
     2461 ttacccagcc tgagcttggg gacctgtgca gaggaaacta agaaaaatgc actcatcaac
     2521 tccttctccc agtgaacgcc cggtgagaaa atccatttgc cacaggccct taccttcaac
     2581 aatccccctt ctatagtgtt cgctggtaaa gggtgaggct cccaagtgct ggaaagcccc
     2641 tggacttggc tcatttctca gcaagggcag gatagcacgg gtcctttcca tagaaatatc
     2701 aacaaattct aacccaagca atccctggac ctacctgcct ccagggatct ctgaagaaaa
     2761 aaagtaaccc attgatcaaa tcagaggaga ggaagcagga ggtctcctag agcccattga
     2821 ggaagaggaa ctttctcagt aggacacttt ataagcctga gaaagctttg aaaaggcgga
     2881 atgagttgat tcatttccac ctcaaaagga acctttccag gtccccctgg aaattgtgcc
     2941 ctggagatgt ttaacaagga gaactggtga ggaaagagtc cttttttact gtagggaaaa
     3001 gccccaaact ggcctcctgg gggatgaggg ctgaaatgat cccgaaggcc ttttaattag
     3061 tgtgaaatcc tgctgtactc agaaatcctt ccccgaattt acagcacagg caggatgacc
     3121 taagaggcag tttacttccc tgagacccac agttgggctg ttctggaaac acatctgtga
     3181 atcatagcca attgccacag agaaaacaga accaagcctc cggtgaggcc actccacccc
     3241 agagaagtct gcagaattcc aaggactcgg attggatgtt cagaattcag caactggaaa
     3301 gtccttaaaa acaaacaggc caaaccaaat caatattgct gtttctagat gtcccttctg
     3361 tggttgagct agttttacag agataaatat attaagacaa ggaggtgggg gtgttatatg
     3421 atcaatgata gccatttgaa agagagggag gagtacagaa ggaaggcact tctgggtact
     3481 taattcagaa atttctttat atttcagcac tggattatca tataatgcaa gtgactatgg
     3541 actaagagtt agttatggtg tcttatgact agatttatta tggtatatta aagtaacaat
     3601 aatattaata ttaccttcct tttttttttt gtttcaaaag agatctttct ccagatgctt
     3661 cagcctgtct ggccttctta tcatatgtgc agcacatcat gtctcagcaa cagtgtggtg
     3721 aggtccttag gtgtcccaag aacaactcag ggagcacggg agggtctgca gttgggaccc
     3781 cacaactata cagctatagg gtaggaggct tccttttcat tggtcctgaa tgaatacaaa
     3841 tcgctcagaa agcattttgg tggcacagaa aggggatgta tttgtgttga gatcttattt
     3901 tattttgtat ttatttatct tctttgactt gcacagcact attgggggtg ggggaagcag
     3961 ggtagtggga gacgaaggca gaagcaagag tcaaactcag aatgactgag ttgaattcac
     4021 tgtctagtca gcaatgcctg cttctgagtt tggcccagag agaaggtatt gagtaagatt
     4081 ttaataactg taaaaagtaa gctggataag taaaatcatg atggatccaa agcacagttt
     4141 cttcatctcc tgataaagaa agtcaaatgc ttgataaatt cagagtcaca gatgtgagca
     4201 tagctatatt cttttaaacg agaggtagag tgacctagca ctaagcaaat gagctgaaat
     4261 gtcggaaaca gagtccatca gcttatttgg ccacacgatc ccaaactagt tttatcttgg
     4321 gaaatggccc tgtcctcagc attcccttct tgtgctggtg gggccagtga agtcttgatc
     4381 ttatcagaaa aaggccacac caagtgcgag ttttcccagg ctgactttcc aggcccttat
     4441 caaatgaaac aacagaagct cttcacagtt ctgtgcccca tggccactcc acagacagac
     4501 aataccaagc atcttagaac tgtcataaga taggtcatgc ctgaaataga tcttgaccat
     4561 atgagagtcc cagaaatcag caaggcctgg acaaatagaa ctaagagaga ggcagaggca
     4621 ggaagctgcg ggtctatctt gtaaagagtt tagcatcact gtgagagtgt gtgtctaaaa
     4681 ttaaattaaa ctagaagcag caggtgagta tttggtaagt acttctgtga ctcgcctcaa
     4741 ttcccactgg ccaggggcca tctcaactgc acggtgaatc aagatgctgg tgtcatcctc
     4801 cttggaaaaa ggaaatgtta actcatggtt aaaactaagt acaatgattc ccaagggatc
     4861 actttcttat ttttttaaat gacattaagg agaatcttaa gaaagcatca gagaaagaca
     4921 tgtgcatgtg aagcaccctg attctgatgt taggaaaact taagcgaaca ggacctgctg
     4981 cacacagccc cattgtcttc tatccatttc tctttatcat tcaaatcaag caacatgtgc
     5041 cctcctcatc aacacacatt cttccccttt gtcagtatgc atctcccagc ttagtgtcag
     5101 gatactttcg attcataatt atgtatgatc caaagtgtgc ataatttcat ttaacgttaa
     5161 agaaatagat ccaattcctt tcttgcaacc aaaaataaat aaaatacgtt gcctcaatat
     5221 aaggtttggg ctattctgtg tttctataga agcaatctgt ttttggtaaa atgtactttt
     5281 aaggatccag tcatctgaag tattttatgt agagttagag atttcacaat attgactata
     5341 catatattta aaatataaat tatccagctg atgtttgaat ttgtcttact ttcctggcca
     5401 cctcgttgtc ctattttata agctggggag ttaactagct taacaaaaga tgcttagctt
     5461 ttgtaaaaga acaagtgttt cattttacaa agacactcca aatgatagtt acttgatttt
     5521 ctcgagacct ttaactatgg tgatgaataa caggacttgc tttcaagcct taataaatgt
     5581 aaaatgcctt ttaatgaaga tacagctgag tgttttcctc atgaatctga accaattacc
     5641 aatttgtgtt ccagtcttga ttggtattga ctgattcaaa taaagttggt ttattttcaa
     5701 atatta
//
