LOCUS       NM_027275               2601 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus pentatricopeptide repeat domain 3 (Ptcd3), transcript
            variant 1, mRNA.
ACCESSION   NM_027275
VERSION     NM_027275.3
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 2601)
  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   2  (bases 1 to 2601)
  AUTHORS   Liu,X., Jiao,Y., Cao,Y., Deng,N., Ma,Y., Hasty,K.A., Kang,A.,
            Chen,H., Stuart,J.M. and Gu,W.
  TITLE     Decreased expression levels of Ifi genes is associated to the
            increased resistance to spontaneous arthritis disease in mice
            deficiency of IL-1RA
  JOURNAL   BMC Immunol 17 (1), 25 (2016)
   PUBMED   27480124
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2601)
  AUTHORS   Greber,B.J. and Ban,N.
  TITLE     Structure and Function of the Mitochondrial Ribosome
  JOURNAL   Annu Rev Biochem 85, 103-132 (2016)
   PUBMED   27023846
  REMARK    Review article
REFERENCE   4  (bases 1 to 2601)
  AUTHORS   Amunts,A., Brown,A., Toots,J., Scheres,S.H.W. and Ramakrishnan,V.
  TITLE     Ribosome. The structure of the human mitochondrial ribosome
  JOURNAL   Science 348 (6230), 95-98 (2015)
   PUBMED   25838379
REFERENCE   5  (bases 1 to 2601)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BB844000.1, AK146005.1, AK013131.1 and BF020753.1.
            
            On Apr 13, 2006 this sequence version replaced NM_027275.2.
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK146172.1, AK146005.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138, SAMN01164142
                                           [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
            1-12                BB844000.1         2-13
            13-1800             AK146005.1         2-1789
            1801-2592           AK013131.1         580-1371
            2593-2601           BF020753.1         1-9                 c
FEATURES             Location/Qualifiers
     source          1..2601
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 32.21 cM"
     gene            1..2601
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /note="pentatricopeptide repeat domain 3"
                     /db_xref="GeneID:69956"
                     /db_xref="MGI:MGI:1917206"
     exon            1..129
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     CDS             23..2080
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; pentatricopeptide repeat-containing protein 3,
                     mitochondrial; pentatricopeptide repeat domain-containing
                     protein 3, mitochondrial; 28S ribosomal protein S39,
                     mitochondrial; small ribosomal subunit protein mS39"
                     /codon_start=1
                     /product="small ribosomal subunit protein mS39 isoform 1
                     precursor"
                     /protein_id="NP_081551.2"
                     /db_xref="CCDS:CCDS20235.1"
                     /db_xref="GeneID:69956"
                     /db_xref="MGI:MGI:1917206"
                     /translation="MAAAAVAARRLSFRSGLVLLQTTRGTGVCEPKVCCRFYAGTESL
                     PKVEGSDITGIEEIVIPKKKTWDKVAVLQALASTVNRDPTAAPYVFHDDPYLIPTSAL
                     ESRSFLLAKKSGETAAKFIINSYPKYFQKDIAEPHIPCLMPEYFEPQIEDVSEAALEE
                     RIRLRKVRASVDMFDQLLQAGTTVSLETTNSLLDLLCYYGDQEPPADYPFQQTEHLEN
                     LEEAAEENNQTSKMESGPWKAQNNAERIFALMPEKNARSYCTMIRGMVKHRAYAQALN
                     VYTELLNNRLSADVYTFNALIEAKTFILNEKFEEKWNDILDLLKHMVAQKVKPNLQTF
                     NTILKGLRKCYSLGRIPALQILREMKHIGIEPSLATYHHIIHLFYPRDLSAIKMPSLI
                     IYDIMNELEGRTFSPQDLDDGRFFQLAMSVCSSLRDLELAYQVHRLLNTGDNRKLVGH
                     DPLRKVYYSKFFSLICSLEQIDVTLKWYKDLIPSVFLPHYQIFIGLLQALDVANRLEL
                     VPQIWKDSKEYSHTFRDALREEVLMLMARDKHPPELQVAFADCAADIKSTYEDQSARQ
                     PAFDWPANPLQYIAVLFLRGGRSQEAWKMLELFKKHKKIPRNELLEEFMDTAKASGST
                     ALAIEVVKLASAFSLPIGESLAQRVVMDFTVDPEQKEALGNLTELNSSDGESSSDSDS
                     DDK"
     exon            130..182
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            183..219
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            220..265
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            266..334
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            335..439
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            440..563
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            564..679
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            680..735
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            736..823
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            824..884
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            885..970
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            971..1115
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1116..1166
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1167..1259
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1260..1288
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1289..1395
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1396..1474
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1475..1565
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1566..1651
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1652..1800
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1801..1842
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            1843..2001
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     exon            2002..2595
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2563..2568
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /note="hexamer: AATAAA"
     polyA_site      2595
                     /gene="Ptcd3"
                     /gene_synonym="2610034F17Rik; 2810422B04Rik; MRP-S39"
                     /note="major polyA site"
ORIGIN      
        1 gtgctccgcg aagagtccaa agatggcggc ggcggcggtt gcagctcgcc gcctgtcctt
       61 tcgcagcggg cttgtcttgc tgcagaccac tcgggggacg ggtgtgtgtg aaccgaaggt
      121 ctgttgcaga ttttatgctg gaactgaatc cctcccaaag gttgaaggat cagatataac
      181 agggattgaa gaaatagtca ttccaaaaaa gaaaacatgg gataaagtgg ctgttcttca
      241 ggcacttgca tccacagtaa acagggatcc tacagctgca ccttatgtat ttcacgatga
      301 tccttacctc ataccaacct ctgctctgga gtctcgttca tttttattgg caaagaagtc
      361 tggagagact gcagcaaagt ttattattaa ttcatatccc aaatatttcc aaaaggatat
      421 agctgagcct catataccgt gcttaatgcc tgagtacttt gagcctcaga ttgaagatgt
      481 aagcgaagct gccctggagg agcgaatcag actcagaaaa gtcagagctt ctgtggacat
      541 gtttgaccag ctcttgcaag caggaaccac agtctctctt gaaacaacta atagtctttt
      601 ggatttattg tgttactatg gtgaccaaga gcccccagct gactatcctt ttcaacaaac
      661 tgaacatttg gaaaacttgg aagaagctgc agaggaaaat aatcaaacat ccaagatgga
      721 gtctggtcct tggaaagcac aaaacaatgc tgagaggatc ttcgctttaa tgccagagaa
      781 gaatgcacgc tcctactgca cgatgatccg agggatggtg aagcaccgag cttatgcaca
      841 ggcactgaac gtgtacacag agttattaaa taacagactt agtgctgatg tatatacctt
      901 taatgcattg attgaagcaa aaacattcat actcaatgag aaatttgagg aaaaatggaa
      961 tgatatactg gatctactga aacatatggt tgcacagaaa gtgaaaccaa atctgcagac
     1021 ttttaataca atattgaaag gtctccggaa gtgttactca cttggaagga taccagcctt
     1081 acagatacta cgtgaaatga aacatattgg aatagaaccc tcacttgcaa cataccatca
     1141 tattattcac ctcttttatc caagagattt aagcgctata aaaatgccat ccctcatcat
     1201 ctatgatatc atgaatgaat tagagggaag aacattttct ccacaggacc ttgatgatgg
     1261 tagatttttt cagttggcca tgagtgtgtg ttcatctctc agagatttag agcttgctta
     1321 ccaagtacac agacttttaa acacggggga caaccggaaa ctggtcggac atgatcctct
     1381 acgtaaggta tattattcga agtttttcag tttgatttgt tcactggaac aaattgatgt
     1441 caccttgaag tggtataagg acctaatacc ttcagtgttc cttccccact accaaatatt
     1501 cataggtctt cttcaagcat tggatgtggc caatagacta gaattggttc ctcagatttg
     1561 gaaagatagt aaagaataca gtcatacttt ccgagatgcc ctaagagaag aagtattgat
     1621 gctcatggcc agggataaac atccaccaga gcttcaggtt gcatttgctg actgtgctgc
     1681 tgatatcaaa tccacatacg aagaccagag tgcccggcag cctgcttttg attggccagc
     1741 caacccttta cagtatatag ctgtcctttt tttaagaggt ggcagaagcc aggaagcctg
     1801 gaaaatgttg gaactcttca aaaagcacaa gaagattccc agaaatgaat tgctggagga
     1861 attcatggac acagcgaaag catccggtag cactgctctg gccattgagg ttgtaaagct
     1921 ggcaagtgcc ttcagcttgc ctattgggga gagccttgcc caaagagtag tgatggattt
     1981 cacagttgac ccagaacaaa aagaagccct gggtaacctc actgaactga acagtagcga
     2041 tggagaaagc agcagtgaca gtgacagtga cgacaaatga gagagagagg tggctcacaa
     2101 tagctgctgg aatgttagaa gtggtaaaaa taaacagata cagggctggg atccaatata
     2161 agctctgtat tgtattgtac tggcctaaac ctaagaccct ggggttcatc tgcagtaccg
     2221 ctaagatgca catctggcca gttttttgcc aagacagcaa caagcattgt gaagtctgac
     2281 ttttggagaa gaacaaattc cacataaaca cactgtttgc aggcctcatt cctactacgc
     2341 ccatcatgtt agaacccaca ggcccttgct gcctacctgc tctgtgatgt gtggtccttt
     2401 ggcctagaga caaggattca aactggtttt catggagatg ggttattact gttgagttga
     2461 tcgtatcccg ttttgagagt acttaaaaag atggatgctc ttagaactaa ttaaatcaga
     2521 agcaagctac tggtttaggc tgcccagatg gtaaagtcat taaataaagc aattgtgtta
     2581 tttttaaaaa tctaaaaaaa a
//
