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    Rnaseh1 ribonuclease H1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 298933, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rnaseh1provided by RGD
    Official Full Name
    ribonuclease H1provided by RGD
    Primary source
    RGD:1309012
    See related
    EnsemblRapid:ENSRNOG00000008584 AllianceGenome:RGD:1309012
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    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]
    Expression
    Biased expression in Thymus (RPKM 74.8), Spleen (RPKM 66.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rnaseh1 in Genome Data Viewer
    Location:
    6q16
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (51011244..51020638)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (45282849..45292258)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (47916188..47925582)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene collectin sub-family member 11 Neighboring gene uncharacterized LOC134479353 Neighboring gene ribosomal protein S7 Neighboring gene acireductone dioxygenase 1 Neighboring gene trafficking protein particle complex subunit 12

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Eukaryotic RNases H1 act processively by interactions through the duplex RNA-binding domain. Gaidamakov SA, et al. Nucleic Acids Res, 2005. PMID 15831789, Free PMC Article
    2. An upstream open reading frame and the context of the two AUG codons affect the abundance of mitochondrial and nuclear RNase H1. Suzuki Y, et al. Mol Cell Biol, 2010 Nov. PMID 20823270, Free PMC Article
    3. Ribonuclease H: the enzymes in eukaryotes. Cerritelli SM, et al. FEBS J, 2009 Mar. PMID 19228196, Free PMC Article
    4. Failure to produce mitochondrial DNA results in embryonic lethality in Rnaseh1 null mice. Cerritelli SM, et al. Mol Cell, 2003 Mar. PMID 12667461
    5. Human senataxin resolves RNA/DNA hybrids formed at transcriptional pause sites to promote Xrn2-dependent termination. Skourti-Stathaki K, et al. Mol Cell, 2011 Jun 24. PMID 21700224, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC108918

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA-DNA hybrid ribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA-DNA hybrid ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA-DNA hybrid ribonuclease activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA replication, removal of RNA primer IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within mitochondrial DNA replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ribonuclease H1
    Names
    RNase H1
    NP_001013115.1
    NP_001273867.1
    XP_038967885.1
    XP_038967887.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001013097.2 → NP_001013115.1  ribonuclease H1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001013115.1

      Status: REVIEWED

      Description
      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).
      Source sequence(s)
      BC091209, CB585145
      UniProtKB/Swiss-Prot
      Q5BK46
      UniProtKB/TrEMBL
      A6HB12
      Related
      ENSRNOP00000011819.4, ENSRNOT00000011819.8
      Conserved Domains (2) summary
      cd09280
      Location:140 → 281
      RNase_HI_eukaryote_like; Eukaryotic RNase H is essential and is longer and more complex than their prokaryotic counterparts
      pfam01693
      Location:29 → 70
      Cauli_VI; Caulimovirus viroplasmin

    2. NM_001286938.1 → NP_001273867.1  ribonuclease H1 isoform 2

      Status: REVIEWED

      Description
      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 shorter isoform (2), which is a nuclear protein (see details in PMID: 20823270).
      Source sequence(s)
      BC091209, CB585145
      UniProtKB/Swiss-Prot
      Q5BK46
      Conserved Domains (2) summary
      cd09280
      Location:114 → 255
      RNase_HI_eukaryote_like; Eukaryotic RNase H is essential and is longer and more complex than their prokaryotic counterparts
      pfam01693
      Location:2 → 44
      Cauli_VI; Caulimovirus viroplasmin

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      51011244..51020638
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039111957.2 → XP_038967885.1  ribonuclease H1 isoform X1

      Conserved Domains (2) summary
      cd09280
      Location:99 → 240
      RNase_HI_eukaryote_like; Eukaryotic RNase H is essential and is longer and more complex than their prokaryotic counterparts
      pfam01693
      Location:3 → 29
      Cauli_VI; Caulimovirus viroplasmin

    2. XM_039111959.2 → XP_038967887.1  ribonuclease H1 isoform X2

      Conserved Domains (1) summary
      pfam01693
      Location:28 → 70
      Cauli_VI; Caulimovirus viroplasmin

    RNA

    1. XR_005505468.2 RNA Sequence

    2. XR_010052062.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5BK46.1 GenPept UniProtKB/Swiss-Prot:Q5BK46

    Gene LinkOut

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