Human Gene RNASEH1 (ENST00000315212.4_7) from GENCODE V47lift37
  Description: ribonuclease H1, transcript variant 12 (from RefSeq NR_165468.1)
Gencode Transcript: ENST00000315212.4_7
Gencode Gene: ENSG00000171865.10_10
Transcript (Including UTRs)
   Position: hg19 chr2:3,589,020-3,605,923 Size: 16,904 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr2:3,593,375-3,605,850 Size: 12,476 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:3,589,020-3,605,923)mRNA (may differ from genome)Protein (286 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RNH1_HUMAN
DESCRIPTION: RecName: Full=Ribonuclease H1; Short=RNase H1; EC=3.1.26.4; AltName: Full=Ribonuclease H type II;
FUNCTION: Endonuclease that specifically degrades the RNA of RNA- DNA hybrids.
CATALYTIC ACTIVITY: Endonucleolytic cleavage to 5'- phosphomonoester.
COFACTOR: Binds 1 magnesium ion per subunit. May bind a second metal ion at a regulatory site, or after substrate binding.
ENZYME REGULATION: In the presence of magnesium, manganese is inhibitory.
SUBUNIT: Monomer (Probable).
SUBCELLULAR LOCATION: Cytoplasm (Potential).
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the RNase H family.
SIMILARITY: Contains 1 RNase H domain.
WEB RESOURCE: Name=Wikipedia; Note=RNase H entry; URL="http://en.wikipedia.org/wiki/RNase_H";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: RNASEH1
Diseases sorted by gene-association score: progressive external ophthalmoplegia with mitochondrial dna deletions, autosomal recessive 2* (1593)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.74 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 212.42 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -35.6073-0.488 Picture PostScript Text
3' UTR -1376.404355-0.316 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR009027 - Ribosomal_L9/RNase_H1_N
IPR017067 - RNase_H1_euk
IPR011320 - RNase_H1_N
IPR012337 - RNaseH-like_dom
IPR002156 - RNaseH_domain

Pfam Domains:
PF00075 - RNase H
PF01693 - Caulimovirus viroplasmin

SCOP Domains:
53098 - Ribonuclease H-like
55658 - L9 N-domain-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2QK9 - X-ray MuPIT 2QKB - X-ray MuPIT 2QKK - X-ray MuPIT 3BSU - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O60930
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000287 magnesium ion binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004518 nuclease activity
GO:0004519 endonuclease activity
GO:0004523 RNA-DNA hybrid ribonuclease activity
GO:0004540 ribonuclease activity
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006401 RNA catabolic process
GO:0043137 DNA replication, removal of RNA primer
GO:0090305 nucleic acid phosphodiester bond hydrolysis
GO:0090501 RNA phosphodiester bond hydrolysis
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK027610 - Homo sapiens cDNA FLJ14704 fis, clone NT2RP3000526.
BC015873 - Homo sapiens, clone IMAGE:4712462, mRNA.
AK124435 - Homo sapiens cDNA FLJ42444 fis, clone BLADE2008479.
JD025816 - Sequence 6840 from Patent EP1572962.
JD031632 - Sequence 12656 from Patent EP1572962.
JD026216 - Sequence 7240 from Patent EP1572962.
JD031995 - Sequence 13019 from Patent EP1572962.
JD021438 - Sequence 2462 from Patent EP1572962.
JD034874 - Sequence 15898 from Patent EP1572962.
AK096913 - Homo sapiens cDNA FLJ39594 fis, clone SKNSH2001875, highly similar to Ribonuclease H1 (EC 3.1.26.4).
JD364620 - Sequence 345644 from Patent EP1572962.
JD149854 - Sequence 130878 from Patent EP1572962.
JD050854 - Sequence 31878 from Patent EP1572962.
JD451543 - Sequence 432567 from Patent EP1572962.
JD050853 - Sequence 31877 from Patent EP1572962.
JD097448 - Sequence 78472 from Patent EP1572962.
JD534436 - Sequence 515460 from Patent EP1572962.
JD114727 - Sequence 95751 from Patent EP1572962.
JD512523 - Sequence 493547 from Patent EP1572962.
JD292405 - Sequence 273429 from Patent EP1572962.
JD053802 - Sequence 34826 from Patent EP1572962.
JD412645 - Sequence 393669 from Patent EP1572962.
JD092018 - Sequence 73042 from Patent EP1572962.
JD315201 - Sequence 296225 from Patent EP1572962.
JD305935 - Sequence 286959 from Patent EP1572962.
JD303141 - Sequence 284165 from Patent EP1572962.
JD364619 - Sequence 345643 from Patent EP1572962.
JD321214 - Sequence 302238 from Patent EP1572962.
JD041454 - Sequence 22478 from Patent EP1572962.
JD036853 - Sequence 17877 from Patent EP1572962.
JD502424 - Sequence 483448 from Patent EP1572962.
JD169439 - Sequence 150463 from Patent EP1572962.
JD529283 - Sequence 510307 from Patent EP1572962.
JD430247 - Sequence 411271 from Patent EP1572962.
JD041453 - Sequence 22477 from Patent EP1572962.
JD158752 - Sequence 139776 from Patent EP1572962.
JD522400 - Sequence 503424 from Patent EP1572962.
JD564486 - Sequence 545510 from Patent EP1572962.
AK075490 - Homo sapiens cDNA PSEC0185 fis, clone OVARC1002091, highly similar to Ribonuclease H1 (EC 3.1.26.4).
BC002973 - Homo sapiens ribonuclease H1, mRNA (cDNA clone MGC:2019 IMAGE:3537074), complete cds.
AF048994 - Homo sapiens ATCC158373 ribonuclease H1 (rnh1) mRNA, complete cds.
AF048995 - Homo sapiens ATCC159806 ribonuclease H1 (rnh1) mRNA, complete cds.
AF039652 - Homo sapiens ribonuclease H type II mRNA, complete cds.
JD070897 - Sequence 51921 from Patent EP1572962.
JD442635 - Sequence 423659 from Patent EP1572962.
JD165391 - Sequence 146415 from Patent EP1572962.
AJ224117 - Homo sapiens mRNA RNase HII.
CR541820 - Homo sapiens full open reading frame cDNA clone RZPDo834B0232D for gene RNASEH1, ribonuclease H1; complete cds, incl. stopcodon.
BT019670 - Homo sapiens ribonuclease H1 mRNA, complete cds.
DQ892597 - Synthetic construct clone IMAGE:100005227; FLH188023.01X; RZPDo839F08150D ribonuclease H1 (RNASEH1) gene, encodes complete protein.
DQ895824 - Synthetic construct Homo sapiens clone IMAGE:100010284; FLH188019.01L; RZPDo839F08149D ribonuclease H1 (RNASEH1) gene, encodes complete protein.
JD081176 - Sequence 62200 from Patent EP1572962.
JD081175 - Sequence 62199 from Patent EP1572962.
JD042280 - Sequence 23304 from Patent EP1572962.
JD344768 - Sequence 325792 from Patent EP1572962.
JD395117 - Sequence 376141 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KQU4, ENST00000315212.1, ENST00000315212.2, ENST00000315212.3, NR_165468, O60523, O60857, O60930, Q57Z93, Q5U0C1, Q6FHD4, RNH1, RNH1_HUMAN, uc317pts.1, uc317pts.2
UCSC ID: ENST00000315212.4_7
RefSeq Accession: NM_002936.6
Protein: O60930 (aka RNH1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.