Human Gene PARS2 (ENST00000371279.4_7) from GENCODE V47lift37
  Description: prolyl-tRNA synthetase 2, mitochondrial (from RefSeq NM_152268.4)
Gencode Transcript: ENST00000371279.4_7
Gencode Gene: ENSG00000162396.6_9
Transcript (Including UTRs)
   Position: hg19 chr1:55,222,571-55,230,196 Size: 7,626 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr1:55,223,407-55,224,834 Size: 1,428 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:55,222,571-55,230,196)mRNA (may differ from genome)Protein (475 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SYPM_HUMAN
DESCRIPTION: RecName: Full=Probable proline--tRNA ligase, mitochondrial; EC=6.1.1.15; AltName: Full=Prolyl-tRNA synthetase; Short=ProRS; Flags: Precursor;
CATALYTIC ACTIVITY: ATP + L-proline + tRNA(Pro) = AMP + diphosphate + L-prolyl-tRNA(Pro).
SUBCELLULAR LOCATION: Mitochondrion matrix (Potential).
SIMILARITY: Belongs to the class-II aminoacyl-tRNA synthetase family.
SEQUENCE CAUTION: Sequence=BAB15178.1; Type=Erroneous initiation;

-  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

+  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: 5.56 RPKM in Testis
Total median expression: 86.96 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 -47.1092-0.512 Picture PostScript Text
3' UTR -244.80836-0.293 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
IPR002314 - aa-tRNA-synt_IIb_cons-dom
IPR006195 - aa-tRNA-synth_II
IPR004154 - Anticodon-bd
IPR002316 - Pro-tRNA-ligase_IIa
IPR004500 - Pro-tRNA-synth_IIa_bac-type

Pfam Domains:
PF00587 - tRNA synthetase class II core domain (G, H, P, S and T)
PF03129 - Anticodon binding domain

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
52954 - Class II aaRS ABD-related
55681 - Class II aaRS and biotin synthetases

ModBase Predicted Comparative 3D Structure on Q7L3T8
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:0000166 nucleotide binding
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004827 proline-tRNA ligase activity
GO:0005524 ATP binding
GO:0016874 ligase activity

Biological Process:
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006433 prolyl-tRNA aminoacylation

Cellular Component:
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix


-  Descriptions from all associated GenBank mRNAs
  AL117473 - Homo sapiens mRNA; cDNA DKFZp727A071 (from clone DKFZp727A071).
AK025585 - Homo sapiens cDNA: FLJ21932 fis, clone HEP04318.
BC007956 - Homo sapiens prolyl-tRNA synthetase 2, mitochondrial (putative), mRNA (cDNA clone MGC:14416 IMAGE:4301987), complete cds.
BC011758 - Homo sapiens prolyl-tRNA synthetase 2, mitochondrial (putative), mRNA (cDNA clone MGC:19467 IMAGE:3530065), complete cds.
JD036458 - Sequence 17482 from Patent EP1572962.
JD155275 - Sequence 136299 from Patent EP1572962.
JD418265 - Sequence 399289 from Patent EP1572962.
JD492254 - Sequence 473278 from Patent EP1572962.
JD127047 - Sequence 108071 from Patent EP1572962.
JD269845 - Sequence 250869 from Patent EP1572962.
JD064893 - Sequence 45917 from Patent EP1572962.
JD523911 - Sequence 504935 from Patent EP1572962.
JD289694 - Sequence 270718 from Patent EP1572962.
JD468941 - Sequence 449965 from Patent EP1572962.
JD098392 - Sequence 79416 from Patent EP1572962.
JD297930 - Sequence 278954 from Patent EP1572962.
JD403802 - Sequence 384826 from Patent EP1572962.
JD127270 - Sequence 108294 from Patent EP1572962.
AK289679 - Homo sapiens cDNA FLJ75964 complete cds, highly similar to Homo sapiens prolyl-tRNA synthetase (mitochondrial)(putative) (PARS2), mRNA.
JD387351 - Sequence 368375 from Patent EP1572962.
JD190953 - Sequence 171977 from Patent EP1572962.
JD270721 - Sequence 251745 from Patent EP1572962.
JD385188 - Sequence 366212 from Patent EP1572962.
HQ448226 - Synthetic construct Homo sapiens clone IMAGE:100071627; CCSB006863_01 prolyl-tRNA synthetase 2, mitochondrial (putative) (PARS2) gene, encodes complete protein.
KJ893500 - Synthetic construct Homo sapiens clone ccsbBroadEn_02894 PARS2 gene, encodes complete protein.
CU675877 - Synthetic construct Homo sapiens gateway clone IMAGE:100017344 5' read PARS2 mRNA.
JD190387 - Sequence 171411 from Patent EP1572962.
DQ586014 - Homo sapiens piRNA piR-53126, complete sequence.
JD069247 - Sequence 50271 from Patent EP1572962.
JD134723 - Sequence 115747 from Patent EP1572962.
JD384451 - Sequence 365475 from Patent EP1572962.
JD261885 - Sequence 242909 from Patent EP1572962.
JD057746 - Sequence 38770 from Patent EP1572962.
JD100758 - Sequence 81782 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
TRNA-CHARGING-PWY - tRNA charging

Reactome (by CSHL, EBI, and GO)

Protein Q7L3T8 (Reactome details) participates in the following event(s):

R-HSA-380198 proline + tRNA(Pro) + ATP => Pro-tRNA(Pro) + AMP + pyrophosphate
R-HSA-379726 Mitochondrial tRNA aminoacylation
R-HSA-379724 tRNA Aminoacylation
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A8K0W4, ENST00000371279.1, ENST00000371279.2, ENST00000371279.3, NM_152268, PARS2 , Q7L3T8, Q9H6S5, Q9UFT1, SYPM_HUMAN, uc318jaw.1, uc318jaw.2
UCSC ID: ENST00000371279.4_7
RefSeq Accession: NM_152268.4
Protein: Q7L3T8 (aka SYPM_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.