LOCUS       NM_001013097            1400 bp    mRNA    linear   ROD 03-JUN-2024
DEFINITION  Rattus norvegicus ribonuclease H1 (Rnaseh1), transcript variant 1,
            mRNA.
ACCESSION   NM_001013097 XM_216670
VERSION     NM_001013097.2
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 1400)
  AUTHORS   Skourti-Stathaki,K., Proudfoot,N.J. and Gromak,N.
  TITLE     Human senataxin resolves RNA/DNA hybrids formed at transcriptional
            pause sites to promote Xrn2-dependent termination
  JOURNAL   Mol Cell 42 (6), 794-805 (2011)
   PUBMED   21700224
REFERENCE   2  (bases 1 to 1400)
  AUTHORS   Suzuki,Y., Holmes,J.B., Cerritelli,S.M., Sakhuja,K., Minczuk,M.,
            Holt,I.J. and Crouch,R.J.
  TITLE     An upstream open reading frame and the context of the two AUG
            codons affect the abundance of mitochondrial and nuclear RNase H1
  JOURNAL   Mol Cell Biol 30 (21), 5123-5134 (2010)
   PUBMED   20823270
REFERENCE   3  (bases 1 to 1400)
  AUTHORS   Cerritelli,S.M. and Crouch,R.J.
  TITLE     Ribonuclease H: the enzymes in eukaryotes
  JOURNAL   FEBS J 276 (6), 1494-1505 (2009)
   PUBMED   19228196
  REMARK    Review article
REFERENCE   4  (bases 1 to 1400)
  AUTHORS   Gaidamakov,S.A., Gorshkova,I.I., Schuck,P., Steinbach,P.J.,
            Yamada,H., Crouch,R.J. and Cerritelli,S.M.
  TITLE     Eukaryotic RNases H1 act processively by interactions through the
            duplex RNA-binding domain
  JOURNAL   Nucleic Acids Res 33 (7), 2166-2175 (2005)
   PUBMED   15831789
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1400)
  AUTHORS   Mootha,V.K., Bunkenborg,J., Olsen,J.V., Hjerrild,M.,
            Wisniewski,J.R., Stahl,E., Bolouri,M.S., Ray,H.N., Sihag,S.,
            Kamal,M., Patterson,N., Lander,E.S. and Mann,M.
  TITLE     Integrated analysis of protein composition, tissue diversity, and
            gene regulation in mouse mitochondria
  JOURNAL   Cell 115 (5), 629-640 (2003)
   PUBMED   14651853
REFERENCE   6  (bases 1 to 1400)
  AUTHORS   Cerritelli,S.M., Frolova,E.G., Feng,C., Grinberg,A., Love,P.E. and
            Crouch,R.J.
  TITLE     Failure to produce mitochondrial DNA results in embryonic lethality
            in Rnaseh1 null mice
  JOURNAL   Mol Cell 11 (3), 807-815 (2003)
   PUBMED   12667461
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CB585145.1 and BC091209.1.
            
            On Nov 20, 2013 this sequence version replaced NM_001013097.1.
            
            Summary: This gene encodes an endonuclease that specifically
            degrades the RNA of RNA-DNA hybrids and is necessary for DNA
            replication and repair. This enzyme is present in both mitochondria
            and nuclei, which are resulted from translation of a single mRNA
            with two in-frame initiation start codons. The use of the first
            start codon produces the mitochondrial isoform and the use of the
            second start codon produces the nuclear isoform. The production of
            the mitochondrial isoform is modulated by an upstream open reading
            frame (uORF) which encodes 7aa in rat. [provided by RefSeq, Nov
            2013].
            
            Transcript Variant: This variant (1) encodes two isoforms due to
            the use of alternative translation initiation codons. The longer
            isoform (1) is derived from the upstream AUG start codon, while the
            shorter isoform (2) is derived from the downstream AUG start codon.
            This RefSeq represents the longer isoform (1), which is a
            mitochondrial protein (see details in PMID: 20823270).
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC091209.1, CV077149.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00132261, SAMD00132263
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: PMID: 20823270
            RefSeq Select criteria             :: based on conservation,
                                                  expression, longest protein
            regulatory uORF                    :: PMID: 20823270
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-25                CB585145.1         1-25
            26-1400             BC091209.1         1-1375
FEATURES             Location/Qualifiers
     source          1..1400
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="6"
                     /map="6q16"
     gene            1..1400
                     /gene="Rnaseh1"
                     /note="ribonuclease H1"
                     /db_xref="GeneID:298933"
                     /db_xref="RGD:1309012"
     exon            1..194
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      40..63
                     /regulatory_class="uORF"
                     /gene="Rnaseh1"
                     /experiment="DESCRIPTION:regulatory uORF[PMID:20823270]"
                     /note="this uORF is predicted to encode a 7 aa peptide
                     (PMID:20823270)"
     CDS             67..924
                     /gene="Rnaseh1"
                     /EC_number="3.1.26.4"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; RNase H1"
                     /codon_start=1
                     /product="ribonuclease H1 isoform 1 precursor"
                     /protein_id="NP_001013115.1"
                     /db_xref="GeneID:298933"
                     /db_xref="RGD:1309012"
                     /translation="MRWLLPLFRTVTLAVVRVRRGVCGLGMFYAVRRGRRTGVFLSWS
                     ECKAQVDRFPAARFKKFATEDEAWAFVRSSSSPDGSKGQESAHVQKLQVKTSKRPREP
                     LGEEEEPPEPGAKHTRQDTEPAALVSKDAFSYMGESVVVYTDGCCSSNGRKRARAGIG
                     VYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAITQAKAQNISKLVLYTDSMFTINGIT
                     NWVQGWKKNGWRTSTGKDVINKEDFMELDELTQGMDIQWMHIPGHSGFVGNEEADRLA
                     REGAKQSEG"
     exon            195..310
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     exon            311..472
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     exon            473..572
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     exon            573..627
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     exon            628..712
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     exon            713..837
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     exon            838..1385
                     /gene="Rnaseh1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1353..1358
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Rnaseh1"
     polyA_site      1385
                     /gene="Rnaseh1"
ORIGIN      
        1 cttgtctgct cgctggcggg aggcacggag agggcagaaa tgtgggttgc cgcgctggcg
       61 tgagcgatgc gctggctgct gccgctgttt cgcactgtga cactggccgt agtgcgcgtc
      121 aggcgaggtg tttgcgggct cggcatgttc tatgcggtga ggagaggccg caggaccggg
      181 gtcttcctga gttggagtga gtgcaaagca caggtggacc ggttccctgc tgccaggttt
      241 aagaaatttg ccacagaaga tgaggcctgg gcctttgtca ggagctcttc cagtccggac
      301 ggttcaaaag ggcaggagag tgcgcatgtg caaaagttac aggtgaagac cagcaagcgg
      361 cctcgggagc ctctgggtga agaggaggaa cctccagagc caggggcaaa gcacacaaga
      421 caggacacgg agccagctgc tctagtgagc aaggatgcat tttcttatat gggagagtca
      481 gtcgttgtct acacggatgg ctgttgctcc agtaatgggc ggaagcgggc acgagcagga
      541 atcggcgttt actgggggcc aggccacccc ttaaatgtag gcataaggct tcctgggcga
      601 cagacaaacc agagggctga gatccatgca gcctgtaaag ccatcacgca agccaaggct
      661 cagaacatca gcaagctggt cctgtacaca gacagcatgt tcaccatcaa cgggataact
      721 aactgggttc agggctggaa gaagaatggc tggagaacga gtacagggaa agacgtgatc
      781 aacaaggagg acttcatgga gctggatgag ctcacccagg gcatggacat ccagtggatg
      841 cacattcctg gccactcagg atttgtgggc aacgaagaag ctgacagact ggcaagggaa
      901 ggagcgaagc aatctgaggg ctgagcacag gagctgctgt acactcagag gacacagtgt
      961 gacctgtcac acagcttgct gagaagtgct aaaataatgg aaagaagtgt tgattgagtc
     1021 ccgcctccgt gagatttcag attagtgtct ttcgggtctg tcctaaaatg ctacagcgtt
     1081 ttagtaggag tcagtgagac acaggtcagt gcatgtggcc taaaagttcc aggttttttt
     1141 ccttccagtt tacacaagtg gacctgaggc tgccctgggc aggcagagct tgcactcagg
     1201 caaccttgac tcctggatca tcttaaagga acagctgaga ccttcaaaat ccaagatgca
     1261 taaatatatt gctaatagat ttttttttgc ctatttttct taaaaatact gtacaaattt
     1321 aaaacatgtt tgaaattatc cttatttttt ataataaaaa tatacagaaa tgacaaaaaa
     1381 aaaaaaaaaa aaaaaaaaaa
//
