LOCUS       NM_011802               2886 bp    mRNA    linear   ROD 16-FEB-2025
DEFINITION  Mus musculus caseinolytic mitochondrial matrix peptidase chaperone
            subunit (Clpx), transcript variant 1, mRNA; nuclear gene for
            mitochondrial product.
ACCESSION   NM_011802
VERSION     NM_011802.3
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 2886)
  AUTHORS   Key,J., Gispert,S. and Auburger,G.
  TITLE     Knockout Mouse Studies Show That Mitochondrial CLPP Peptidase and
            CLPX Unfoldase Act in Matrix Condensates near IMM, as Fast Stress
            Response in Protein Assemblies for Transcript Processing,
            Translation, and Heme Production
  JOURNAL   Genes (Basel) 15 (6), 694 (2024)
   PUBMED   38927630
  REMARK    GeneRIF: Knockout Mouse Studies Show That Mitochondrial CLPP
            Peptidase and CLPX Unfoldase Act in Matrix Condensates near IMM, as
            Fast Stress Response in Protein Assemblies for Transcript
            Processing, Translation, and Heme Production.
            Review article
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2886)
  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 2886)
  AUTHORS   Key,J., Gispert,S., Kandi,A.R., Heinz,D., Hamann,A., Osiewacz,H.D.,
            Meierhofer,D. and Auburger,G.
  TITLE     CLPP-Null Eukaryotes with Excess Heme Biosynthesis Show Reduced
            L-arginine Levels, Probably via CLPX-Mediated OAT Activation
  JOURNAL   Biomolecules 14 (2), 241 (2024)
   PUBMED   38397478
  REMARK    GeneRIF: CLPP-Null Eukaryotes with Excess Heme Biosynthesis Show
            Reduced L-arginine Levels, Probably via CLPX-Mediated OAT
            Activation.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2886)
  AUTHORS   Guo,C., Xiao,Y., Gu,J., Zhao,P., Hu,Z., Zheng,J., Hua,R., Hai,Z.,
            Su,J., Zhang,J.V., Yeung,W.S.B. and Wang,T.
  TITLE     ClpP/ClpX deficiency impairs mitochondrial functions and mTORC1
            signaling during spermatogenesis
  JOURNAL   Commun Biol 6 (1), 1012 (2023)
   PUBMED   37798322
  REMARK    GeneRIF: ClpP/ClpX deficiency impairs mitochondrial functions and
            mTORC1 signaling during spermatogenesis.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2886)
  AUTHORS   Key,J., Torres-Odio,S., Bach,N.C., Gispert,S., Koepf,G.,
            Reichlmeir,M., West,A.P., Prokisch,H., Freisinger,P., Newman,W.G.,
            Shalev,S., Sieber,S.A., Wittig,I. and Auburger,G.
  TITLE     Inactivity of Peptidase ClpP Causes Primary Accumulation of
            Mitochondrial Disaggregase ClpX with Its Interacting Nucleoid
            Proteins, and of mtDNA
  JOURNAL   Cells 10 (12), 3354 (2021)
   PUBMED   34943861
  REMARK    GeneRIF: Inactivity of Peptidase ClpP Causes Primary Accumulation
            of Mitochondrial Disaggregase ClpX with Its Interacting Nucleoid
            Proteins, and of mtDNA.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2886)
  AUTHORS   Da Cruz,S., Xenarios,I., Langridge,J., Vilbois,F., Parone,P.A. and
            Martinou,J.C.
  TITLE     Proteomic analysis of the mouse liver mitochondrial inner membrane
  JOURNAL   J Biol Chem 278 (42), 41566-41571 (2003)
   PUBMED   12865426
REFERENCE   7  (bases 1 to 2886)
  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   8  (bases 1 to 2886)
  AUTHORS   Tomoyasu,T., Ohkishi,T., Ukyo,Y., Tokumitsu,A., Takaya,A.,
            Suzuki,M., Sekiya,K., Matsui,H., Kutsukake,K. and Yamamoto,T.
  TITLE     The ClpXP ATP-dependent protease regulates flagellum synthesis in
            Salmonella enterica serovar typhimurium
  JOURNAL   J Bacteriol 184 (3), 645-653 (2002)
   PUBMED   11790733
REFERENCE   9  (bases 1 to 2886)
  AUTHORS   Corydon,T.J., Wilsbech,M., Jespersgaard,C., Andresen,B.S.,
            Borglum,A.D., Pedersen,S., Bolund,L., Gregersen,N. and Bross,P.
  TITLE     Human and mouse mitochondrial orthologs of bacterial ClpX
  JOURNAL   Mamm Genome 11 (10), 899-905 (2000)
   PUBMED   11003706
REFERENCE   10 (bases 1 to 2886)
  AUTHORS   Santagata,S., Bhattacharyya,D., Wang,F.H., Singha,N., Hodtsev,A.
            and Spanopoulou,E.
  TITLE     Molecular cloning and characterization of a mouse homolog of
            bacterial ClpX, a novel mammalian class II member of the Hsp100/Clp
            chaperone family
  JOURNAL   J Biol Chem 274 (23), 16311-16319 (1999)
   PUBMED   10347188
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC110235.13, AK080339.1, AK087848.1 and AV237409.1.
            
            On Nov 8, 2013 this sequence version replaced NM_011802.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer 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 :: AK087848.1, AF134983.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: reported by MitoCarta
            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
            1-76                AC110235.13        177736-177811
            77-655              AK080339.1         2-580
            656-2870            AK087848.1         610-2824
            2871-2886           AV237409.1         241-256
FEATURES             Location/Qualifiers
     source          1..2886
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="9"
                     /map="9 35.22 cM"
     gene            1..2886
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /note="caseinolytic mitochondrial matrix peptidase
                     chaperone subunit"
                     /db_xref="GeneID:270166"
                     /db_xref="MGI:MGI:1346017"
     exon            1..306
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     CDS             228..2132
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /EC_number="3.6.4.10"
                     /note="isoform 1 is encoded by transcript variant 1;
                     caseinolytic protease X; ATP-dependent CLP protease
                     ATP-binding subunit ClpX-like, mitochondrial; caseinolytic
                     peptidase X; ATP-dependent clpX-like chaperone,
                     mitochondrial"
                     /codon_start=1
                     /product="ATP-dependent clpX-like chaperone, mitochondrial
                     isoform 1"
                     /protein_id="NP_035932.2"
                     /db_xref="CCDS:CCDS23288.1"
                     /db_xref="GeneID:270166"
                     /db_xref="MGI:MGI:1346017"
                     /translation="MSSCGACTCGAAAARLLTTSLTSAQRGISCGRIHVPVLGRLGTT
                     LDAQALRRAPLRTFSETPAYFASKDGANKDGSGDGNKKSVTEGSSKKSGSGNSGKGGN
                     QLRCPKCGDLCTHVETFVSSTRFVKCEKCHHFFVVLSEADSKKSIIKEPESAAEAVKL
                     AFQQKPPPPPKKIYNYLDKYVVGQSFAKKVLSVAVYNHYKRIYNNIPANLRQQAEAEK
                     QTSLTPRELEIRRREDEYRFTKLLQIAGISPHGNALGASMQQQVNQQMPQEKRGGEVL
                     DSSQDDIKLEKSNILLLGPTGSGKTLLAQTLAKCLDVPFAICDCTTLTQAGYVGEDIE
                     SVIAKLLQDANYNVEKAQQGIVFLDEVDKIGSVPGIHQLRDVGGEGVQQGLLKLLEGT
                     IVNVPEKNSRKLRGETVQVDTTNVLFVASGAFNGLDRIISRRKNEKYLGFGTPSNLGK
                     GRRAAAAADLANRSGESNTHQDIEEKDRLLRHVEARDLIEFGMIPEFVGRLPVVVPLH
                     SLDEKTLVQILTEPRNAVIPQYQALFSMDKCELNVTEDALKAIARLALERKTGARGLR
                     SIMEKLLLEPMFEVPNSDIVCVEVDKEVVEGKKEPGYIRAPSKESSEEEYDSGVEEDG
                     WPRQADAANS"
     exon            307..470
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            471..588
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            589..743
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            744..903
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            904..945
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            946..1122
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            1123..1287
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            1288..1376
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            1377..1541
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            1542..1841
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            1842..1934
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            1935..2041
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     exon            2042..2886
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2469..2474
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /note="hexamer: AATAAA"
     polyA_site      2488
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /note="major polyA site"
     regulatory      2850..2855
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
                     /note="hexamer: AATAAA"
     polyA_site      2872
                     /gene="Clpx"
                     /gene_synonym="E330029I21"
ORIGIN      
        1 ggagagtagg gagggagggg aggaggggag gagcctactc cggtgagtag aaggcggtgg
       61 gacgctggga tcgtccaggc ctggctgcct ggtggggaaa acgctgcgcc agcatagaac
      121 cgacggaagg gagcggagcc agtcagcgga acactcgcgc gacacgatcg ggtcgctgag
      181 ccccctcgat cctcagggcg cgaagccctg gcctaggccc cgcggagatg tccagttgcg
      241 gcgcttgtac ctgcggcgct gcggccgccc ggcttctcac cacttcgctc acctccgcgc
      301 agagaggtat ttcgtgtggg cgaatccatg tgccagtgtt aggaagactg gggacgacct
      361 tggacgctca ggctctgcgc agagctcctc ttagaacctt ttcagaaaca ccagcatact
      421 ttgcctcaaa agacggggca aacaaggatg gctccggaga tggaaataag aaatcagtga
      481 ctgaaggaag cagtaagaaa tcaggctctg ggaattctgg gaaaggtgga aaccagcttc
      541 gctgtcctaa atgtggtgat ttgtgtacac acgtggagac ctttgtgtct tccacgcgtt
      601 ttgttaagtg tgaaaaatgt catcattttt ttgtggtgct gtcggaagca gactcaaaga
      661 aaagcataat taaggaaccc gagtccgctg cagaggctgt gaagttggca ttccagcaga
      721 agccacctcc gccccccaaa aagatttata actacctcga caagtatgtt gttggccagt
      781 cgtttgctaa gaaagtgctt tcagttgccg tgtataatca ttataagaga atatataata
      841 atattccagc taatctgaga cagcaagcag aggctgagaa gcagacatca ctaacaccta
      901 gagagttaga aataagaaga cgggaggatg agtacagatt tacaaagttg cttcagatcg
      961 ctgggatcag cccacacggc aatgccttgg gagcctctat gcagcagcag gtaaaccagc
     1021 aaatgcctca ggagaaaaga ggaggtgaag tgttggactc ttctcaagat gatataaaac
     1081 tggaaaaaag taatattttg ctgcttggac caactgggtc aggtaaaacc cttctggcac
     1141 aaactttagc taaatgcctt gatgttcctt ttgctatctg tgactgtaca actttgaccc
     1201 aggctggata tgtaggtgaa gatattgaat ctgtgattgc caaactactc caagatgcca
     1261 attacaatgt agagaaagca caacaaggaa ttgtctttct ggatgaagta gataagattg
     1321 gcagtgtgcc aggcattcat caattacggg atgtaggtgg agaaggcgtt cagcaaggtt
     1381 tattaaaact tctagaaggc acaatagtca atgttccaga aaagaattct cgaaaactac
     1441 gtggagagac agttcaagtt gatacaacaa atgtcttgtt tgtggcatct ggtgccttta
     1501 atggcttaga cagaatcatc agcaggagga aaaatgaaaa gtatctcggc tttggaacac
     1561 catctaacct gggaaagggc agaagggctg cagctgcagc ggatcttgct aaccgaagtg
     1621 gggaatctaa cactcatcag gacattgagg agaaagaccg gttactccgc catgtggaag
     1681 ccagagatct tattgagttt ggcatgatac cagagtttgt gggacggttg cctgtggtgg
     1741 ttcctttgca cagcctagat gagaagacac ttgtacaaat actgaccgag ccacggaatg
     1801 ctgttattcc tcagtatcag gccttgttca gcatggataa gtgtgagctg aatgttactg
     1861 aggatgctct gaaagccata gcgagattgg ccctggaaag aaaaacaggt gcacgaggcc
     1921 ttcggtctat aatggaaaag ctgttactag aaccaatgtt cgaagttcct aattctgaca
     1981 ttgtatgtgt ggaagttgac aaagaagtag tagaaggcaa aaaggaacca ggatacattc
     2041 gggcaccctc aaaagagtcc tctgaagagg aatatgactc tggagtggag gaggatggat
     2101 ggcctcgtca agcggatgct gcaaacagct aaaccatcag actctcacct gtacatacag
     2161 ctttccctgt tctttagggt cataacagtt tccgcagtct ggcattaaag gcattgaatc
     2221 tatctcggat atcatacatg gtcaaaagcc tttaagataa gaatcggatc atgtatatta
     2281 ctgtaacatc acattgattt atacagaaga cagtatatgg actttaatga cacaatgttt
     2341 agagataaaa atgtacatta ttttggttct gttttttaaa aatatacttt aacagaattc
     2401 ttaggaattc tcttaagcaa tgcagatgtt gcaataactt tacaataatg ttactctaaa
     2461 gatgagaaaa taaaatcttt aaagttgagt actgggatcc cattgtttag tgttaccatt
     2521 ttctacccac attccttgga aatatttgaa ttttcatttt aaaaattgga tcaggtagtt
     2581 tttagataag taagaatacc ttgaaaaccc acattttgac gacatgttta tatttctggt
     2641 ctcttcagct agtggagagg cattggtttc ccagctggca ccattagtaa cagaggcatt
     2701 cccttgatga cttgtctgac ttacttgcat ctctgaacca ttttttatca ccatcagtga
     2761 gcaaatggga ttaataatct gatttaaata tttagaaggc cataggcaac taatcttaca
     2821 gagcttgctg tcagccatgt gctagactaa ataaaatatc ttatagtgtg cactttttct
     2881 aaagtc
//
