Human Gene PTRH1 (ENST00000543175.5) from GENCODE V44
  Description: Homo sapiens peptidyl-tRNA hydrolase 1 homolog (PTRH1), transcript variant 1, mRNA. (from RefSeq NM_001002913)
Gencode Transcript: ENST00000543175.5
Gencode Gene: ENSG00000187024.15
Transcript (Including UTRs)
   Position: hg38 chr9:127,713,807-127,715,663 Size: 1,857 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg38 chr9:127,714,100-127,715,639 Size: 1,540 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:127,713,807-127,715,663)mRNA (may differ from genome)Protein (214 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PTH_HUMAN
DESCRIPTION: RecName: Full=Probable peptidyl-tRNA hydrolase; Short=PTH; EC=3.1.1.29;
CATALYTIC ACTIVITY: N-substituted aminoacyl-tRNA + H(2)O = N- substituted amino acid + tRNA.
INTERACTION: P04156:PRNP; NbExp=1; IntAct=EBI-2602515, EBI-977302;
SIMILARITY: Belongs to the PTH family.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.83 RPKM in Brain - Cerebellum
Total median expression: 12.23 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 -3.2024-0.133 Picture PostScript Text
3' UTR -93.20293-0.318 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
IPR001328 - Pept_tRNA_hydro
IPR018171 - Pept_tRNA_hydro_CS

Pfam Domains:
PF01195 - Peptidyl-tRNA hydrolase

ModBase Predicted Comparative 3D Structure on Q86Y79
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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologGenome Browser
Gene Details    Gene Details
Gene Sorter    Gene Sorter
MGIRGDEnsembl  SGD
Protein SequenceProtein SequenceProtein Sequence  Protein Sequence
AlignmentAlignmentAlignment  Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0004045 aminoacyl-tRNA hydrolase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity


-  Descriptions from all associated GenBank mRNAs
  LF205651 - JP 2014500723-A/13154: Polycomb-Associated Non-Coding RNAs.
MA441228 - JP 2018138019-A/13154: Polycomb-Associated Non-Coding RNAs.
BC032117 - Homo sapiens cDNA clone IMAGE:4908933, partial cds.
BC015230 - Homo sapiens peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3899552), containing frame-shift errors.
JD354747 - Sequence 335771 from Patent EP1572962.
JD449546 - Sequence 430570 from Patent EP1572962.
JD310480 - Sequence 291504 from Patent EP1572962.
AK090922 - Homo sapiens cDNA FLJ33603 fis, clone BRAMY2014387, weakly similar to PEPTIDYL-TRNA HYDROLASE (EC 3.1.1.29).
AX746684 - Sequence 209 from Patent EP1308459.
BC047012 - Homo sapiens peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae), mRNA (cDNA clone MGC:51999 IMAGE:5001221), complete cds.
JD525842 - Sequence 506866 from Patent EP1572962.
JD116502 - Sequence 97526 from Patent EP1572962.
JD098084 - Sequence 79108 from Patent EP1572962.
JD270310 - Sequence 251334 from Patent EP1572962.
JD346994 - Sequence 328018 from Patent EP1572962.
HQ257888 - Synthetic construct Homo sapiens clone IMAGE:100072197 peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) (PTRH1) gene, encodes complete protein.
KJ895525 - Synthetic construct Homo sapiens clone ccsbBroadEn_04919 PTRH1 gene, encodes complete protein.
LF346846 - JP 2014500723-A/154349: Polycomb-Associated Non-Coding RNAs.
MA582423 - JP 2018138019-A/154349: Polycomb-Associated Non-Coding RNAs.
LF346845 - JP 2014500723-A/154348: Polycomb-Associated Non-Coding RNAs.
MA582422 - JP 2018138019-A/154348: Polycomb-Associated Non-Coding RNAs.
LF346844 - JP 2014500723-A/154347: Polycomb-Associated Non-Coding RNAs.
MA582421 - JP 2018138019-A/154347: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: C9orf115, ENST00000543175.1, ENST00000543175.2, ENST00000543175.3, ENST00000543175.4, NM_001002913, PTH_HUMAN, Q86Y79, uc004bro.1, uc004bro.2, uc004bro.3, uc004bro.4, uc004bro.5
UCSC ID: ENST00000543175.5
RefSeq Accession: NM_001002913
Protein: Q86Y79 (aka PTH_HUMAN)
CCDS: CCDS35147.1

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