LOCUS       NM_001401119            2999 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus pentatricopeptide repeat domain 1 (Ptcd1), mRNA;
            nuclear gene for mitochondrial product.
ACCESSION   NM_001401119 XM_006248871
VERSION     NM_001401119.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2999)
  AUTHORS   Perks,K.L., Rossetti,G., Kuznetsova,I., Hughes,L.A., Ermer,J.A.,
            Ferreira,N., Busch,J.D., Rudler,D.L., Spahr,H., Schondorf,T.,
            Shearwood,A.J., Viola,H.M., Siira,S.J., Hool,L.C., Milenkovic,D.,
            Larsson,N.G., Rackham,O. and Filipovska,A.
  TITLE     PTCD1 Is Required for 16S rRNA Maturation Complex Stability and
            Mitochondrial Ribosome Assembly
  JOURNAL   Cell Rep 23 (1), 127-142 (2018)
   PUBMED   29617655
REFERENCE   2  (bases 1 to 2999)
  AUTHORS   Rackham,O., Davies,S.M., Shearwood,A.M., Hamilton,K.L., Whelan,J.
            and Filipovska,A.
  TITLE     Pentatricopeptide repeat domain protein 1 lowers the levels of
            mitochondrial leucine tRNAs in cells
  JOURNAL   Nucleic Acids Res 37 (17), 5859-5867 (2009)
   PUBMED   19651879
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000012.1.
            
            On Feb 2, 2022 this sequence version replaced XM_006248871.2.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC129116.1, SRR26360172.1902915.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: inferred from homology
            RefSeq Select criteria             :: based on conservation,
                                                  expression, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-68                JAXUCZ010000012.1  14559473-14559540
            69-514              JAXUCZ010000012.1  14561564-14562009
            515-655             JAXUCZ010000012.1  14565603-14565743
            656-874             JAXUCZ010000012.1  14567185-14567403
            875-976             JAXUCZ010000012.1  14568117-14568218
            977-1681            JAXUCZ010000012.1  14570054-14570758
            1682-1798           JAXUCZ010000012.1  14573097-14573213
            1799-1981           JAXUCZ010000012.1  14573929-14574111
            1982-2999           JAXUCZ010000012.1  14576181-14577198
FEATURES             Location/Qualifiers
     source          1..2999
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="12"
                     /map="12p11"
     gene            1..2999
                     /gene="Ptcd1"
                     /note="pentatricopeptide repeat domain 1"
                     /db_xref="GeneID:304278"
                     /db_xref="RGD:1311473"
     exon            1..68
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            69..514
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     CDS             95..2155
                     /gene="Ptcd1"
                     /codon_start=1
                     /product="pentatricopeptide repeat-containing protein 1,
                     mitochondrial"
                     /protein_id="NP_001388048.1"
                     /db_xref="GeneID:304278"
                     /db_xref="RGD:1311473"
                     /translation="MDLLRLSRLFSGPHPIGLSVLQRLDLLRSTQWTGGREGPAWLRA
                     ASCSSSSHQKRMSSLCSDSSTPVAPQEEEEEESFGTLSEKFSSRRIFHKSTAQLYNLK
                     LKEQGVEEEELEPRLRQGGRNTPYWYFLQCKRLLKEGKLAEALDLFERQMLKEERLQP
                     LECNYTVLIGGCGRVGYLKKAFRLFNDMKKRDLEPSDATYTALFNVCAESPWKDSALQ
                     SALKLRQQLQAQNFQLNLKTYHALLKVAAKCADLRVCLEVFKEIIQKGHAVTEETFCF
                     LLMGCIQDKKTGFRQAMQVWRQMLSLGIKPSRHGYNLLLGAARDCGLGDPEVASRLLL
                     TSQEETILLQPPTGRRLAGGKVQAKTRHGVSVKHVEALERQLFLEPSHKLEGPPAFPE
                     ARETSRTQPEVETKAEPGHMGALAPLALKPPDLELQVNLLSLGALSPAVVSFGTVATP
                     ADRLALMGGLEGFLGKMAEHRLQPDIKTLTLLAEVVEPGSPAESSLLSILDRHRVEAD
                     ITFFNTLIRKKSKLGDLEGAKALLPILAKKGIVPNLRTFCNLAIGCHRPRDGMQLLAD
                     MKKSQVTPNTHIYSTLINAALKKLDYTYLISILKDMRRNSVPVNEVVIRQLEFAAQYP
                     PTFDRYKEKNTYLEKIDGFRAYYKQWLKVMPAEEPPHPWQEFRDKPVRNQVITENAGG
                     LRDG"
     exon            515..655
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            656..874
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            875..976
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            977..1681
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            1682..1798
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            1799..1981
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
     exon            1982..2999
                     /gene="Ptcd1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gattcagaca gaacatgagg cggcgacgca agtgcgcctg cgcgggacct tcctcttgcg
       61 tgctgagggc tgcagtggcc caaggtagcc agggatggac ctcctaagac tctcccggct
      121 cttttctggc ccccacccca taggactgtc tgtccttcaa cgcctggatc ttctccgatc
      181 tacccaatgg acaggaggca gggagggacc tgcatggctg agggctgcct cctgcagttc
      241 ttcctcccac cagaagagaa tgagcagcct ctgctctgac tccagtactc ctgtggcgcc
      301 tcaggaggag gaagaagaag agagctttgg gaccctctct gagaaattct cctcccggag
      361 aatattccac aaatcaacag cccagctcta taacctgaaa ctcaaggagc aaggtgttga
      421 ggaggaagaa ctggagccca gactacggca gggcgggagg aacactccat actggtactt
      481 ccttcagtgc aaacgtctgc tcaaggaagg aaagcttgca gaggccctgg atctgtttga
      541 gaggcagatg ctgaaggaag agcgtttgca gcctctggag tgcaactaca cggtgctgat
      601 cgggggctgc gggcgtgtcg ggtacctgaa aaaggccttc aggctcttca atgatatgaa
      661 gaagagagac ctggagccct cagatgccac atacacagcc ctgttcaatg tctgtgcgga
      721 gtcgccctgg aaggactctg ccctgcagag tgcactgaag ctccgacagc agctccaggc
      781 ccaaaacttc cagctcaacc tgaagacata tcacgccctg ctgaaggtgg cagccaagtg
      841 tgcagacctc agggtgtgcc tggaagtctt caaggaaatc atccaaaagg ggcatgcagt
      901 cacagaggag accttctgtt ttctgctcat gggctgcatc caggacaaga agacaggctt
      961 ccggcaagca atgcaggtgt ggcggcagat gctgagtctg gggatcaaac caagtaggca
     1021 tggctacaac ctcctgctgg gggcagctcg agactgtggt ctgggggacc cagaggttgc
     1081 ctccaggctg ctcctgacgt cccaggaaga gaccatcctg ctccagcccc caacaggcag
     1141 gcgtctggca ggagggaaag tccaggccaa gacaaggcat ggtgtgtcag tcaaacatgt
     1201 ggaagcactc gagaggcagc tgtttctgga accttctcac aaactcgagg ggccaccagc
     1261 ctttcctgag gccagggaaa caagcaggac ccagcctgag gtagaaacca aggcagaacc
     1321 tggccacatg ggagccctcg ccccactggc cctgaagcct cccgacttgg agctgcaagt
     1381 caatctccta agtcttgggg ctctgtctcc tgctgtggtc tcctttggga cagtggccac
     1441 acctgctgat aggctggctt tgatgggggg cctggaaggc ttcctgggca agatggcaga
     1501 gcacaggctc cagccagaca tcaaaaccct tactctgctg gctgaggtgg tggaaccggg
     1561 gagccccgca gagtcctcac tgctgtccat cctggacagg catagggtgg aggctgacat
     1621 aaccttcttc aacacactga taaggaagaa gagcaagctg ggagacctgg agggagccaa
     1681 ggcactgttg ccaattctgg caaagaaggg aattgtcccc aatctgcgga ctttctgcaa
     1741 tctggccatt gggtgccatc gacccaggga tggtatgcag ctgcttgcag acatgaagaa
     1801 gtcccaggtg accccgaaca cccacatcta cagcaccctt atcaacgcag ccctcaagaa
     1861 gctggactac acctacctca tcagcatcct gaaggacatg agacggaaca gcgtcccggt
     1921 gaacgaagtg gtcatccgcc agctggagtt tgcagcccag taccctccca cctttgacag
     1981 gtacaaagaa aaaaacacct acttggagaa gattgatggc tttcgggctt attacaagca
     2041 gtggctgaaa gtgatgccag cagaggagcc cccccacccc tggcaggagt tccgggacaa
     2101 gcctgtccgg aaccaagtca tcactgagaa tgctggaggc ctcagggatg gatgacgaag
     2161 catgctgcta tgacaagtac ccagccttcg cactgctgct ggagcccagg agtcccttta
     2221 gaagccaaga ttactccaga ggcgccatag catttcacag gcataggtgt aaggacaaat
     2281 gctgggctcg ggatgctcac atcctagcag gcctcagatc aggccaagac atgttgatgg
     2341 acaacgacac agagccattc cctgcattcc acagcctgct gctctgaaag aaagactgta
     2401 gctaagaggt ctaaaggttt tatttttaca gatctcagct ggtgaacact aaagctgtca
     2461 cctgtagagc tcatgcttcc cctgggtctt ttctctgagt gccactctga gaagagttgc
     2521 ttcaggaggc agtggcccaa taagcaggag cccaaggtcc aaagtccaag atgcagagga
     2581 gtcaggggcg tcagtcaacc agagcaaccc cggcagccac agtgcgtgca ctcgatgatg
     2641 cgaccctgta agagaagagg accgtttgaa tacactgcct cagccctgca cactcctaca
     2701 ggagcctgct cgacaggggg ctagtggaac actccctccc agagcatctt taccagacac
     2761 ttctagctgg gcacttcggc tcctttgtga aatggaaagt tactactaaa gtcagtgtct
     2821 gtgtgcagct gctataacaa gccaaattta ccacaaagaa tcgtgggtct gccgctacac
     2881 tgagagctaa agcctgagtt cttgaggcta cctggggact ggagcaatgt gtctttatct
     2941 ccttttctgg aaaccatgag cccattctaa acaaataaag ttctctggtg aagctgtta
//
