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Rnaseh1 ribonuclease H1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 298933, updated on 27-Nov-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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