Human Gene NARS1 (ENST00000256854.10_7) from GENCODE V47lift37
  Description: asparaginyl-tRNA synthetase 1 (from RefSeq NM_004539.4)
Gencode Transcript: ENST00000256854.10_7
Gencode Gene: ENSG00000134440.12_10
Transcript (Including UTRs)
   Position: hg19 chr18:55,267,888-55,289,068 Size: 21,181 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr18:55,268,884-55,288,949 Size: 20,066 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:55,267,888-55,289,068)mRNA (may differ from genome)Protein (548 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
OMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SYNC_HUMAN
DESCRIPTION: RecName: Full=Asparagine--tRNA ligase, cytoplasmic; EC=6.1.1.22; AltName: Full=Asparaginyl-tRNA synthetase; Short=AsnRS;
CATALYTIC ACTIVITY: ATP + L-asparagine + tRNA(Asn) = AMP + diphosphate + L-asparaginyl-tRNA(Asn).
SUBCELLULAR LOCATION: Cytoplasm.
SIMILARITY: Belongs to the class-II aminoacyl-tRNA synthetase 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


+  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: 60.42 RPKM in Cells - Cultured fibroblasts
Total median expression: 1897.71 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 -41.50119-0.349 Picture PostScript Text
3' UTR -207.30996-0.208 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
IPR004364 - aa-tRNA-synt_II
IPR018150 - aa-tRNA-synt_II-like
IPR006195 - aa-tRNA-synth_II
IPR004522 - Asn-tRNA-ligase_IIb
IPR002312 - Asp/Asn-tRNA-synth_IIb
IPR012340 - NA-bd_OB-fold
IPR016027 - NA-bd_OB-fold-like
IPR004365 - NA-bd_OB_tRNA-helicase

Pfam Domains:
PF00152 - tRNA synthetases class II (D, K and N)
PF01336 - OB-fold nucleic acid binding domain

SCOP Domains:
50249 - Nucleic acid-binding proteins
55681 - Class II aaRS and biotin synthetases
54791 - Eukaryotic type KH-domain (KH-domain type I)

ModBase Predicted Comparative 3D Structure on O43776
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:0003676 nucleic acid binding
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004816 asparagine-tRNA ligase activity
GO:0005524 ATP binding
GO:0016874 ligase activity

Biological Process:
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006421 asparaginyl-tRNA aminoacylation

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC001687 - Homo sapiens asparaginyl-tRNA synthetase, mRNA (cDNA clone MGC:855 IMAGE:2987840), complete cds.
LP895371 - Sequence 235 from Patent EP3253886.
LF211075 - JP 2014500723-A/18578: Polycomb-Associated Non-Coding RNAs.
U79254 - Human clone 23693 mRNA sequence.
D84273 - Homo sapiens mRNA for Asparaginyl tRNA Synthetase, complete cds.
LF343754 - JP 2014500723-A/151257: Polycomb-Associated Non-Coding RNAs.
JD501322 - Sequence 482346 from Patent EP1572962.
AK129897 - Homo sapiens cDNA FLJ26387 fis, clone HRT07202, highly similar to Asparaginyl-tRNA synthetase, cytoplasmic (EC 6.1.1.22).
JD297711 - Sequence 278735 from Patent EP1572962.
LF343756 - JP 2014500723-A/151259: Polycomb-Associated Non-Coding RNAs.
JD086508 - Sequence 67532 from Patent EP1572962.
LF343757 - JP 2014500723-A/151260: Polycomb-Associated Non-Coding RNAs.
JD305046 - Sequence 286070 from Patent EP1572962.
JD244894 - Sequence 225918 from Patent EP1572962.
JD262834 - Sequence 243858 from Patent EP1572962.
AK297777 - Homo sapiens cDNA FLJ52703 complete cds, highly similar to Asparaginyl-tRNA synthetase, cytoplasmic (EC6.1.1.22).
JD297074 - Sequence 278098 from Patent EP1572962.
JD160550 - Sequence 141574 from Patent EP1572962.
JD037279 - Sequence 18303 from Patent EP1572962.
AJ000334 - Homo sapiens mRNA for cytosolic asparaginyl-tRNA synthetase.
JD102699 - Sequence 83723 from Patent EP1572962.
AK222835 - Homo sapiens mRNA for asparaginyl-tRNA synthetase variant, clone: HEP09493.
AB528053 - Synthetic construct DNA, clone: pF1KB5954, Homo sapiens NARS gene for asparaginyl-tRNA synthetase, without stop codon, in Flexi system.
KJ897222 - Synthetic construct Homo sapiens clone ccsbBroadEn_06616 NARS gene, encodes complete protein.
LF343759 - JP 2014500723-A/151262: Polycomb-Associated Non-Coding RNAs.
LF343760 - JP 2014500723-A/151263: Polycomb-Associated Non-Coding RNAs.
LF343761 - JP 2014500723-A/151264: Polycomb-Associated Non-Coding RNAs.
LF343762 - JP 2014500723-A/151265: Polycomb-Associated Non-Coding RNAs.
CU674834 - Synthetic construct Homo sapiens gateway clone IMAGE:100017699 5' read NARS mRNA.
AK293985 - Homo sapiens cDNA FLJ54981 complete cds, highly similar to Asparaginyl-tRNA synthetase, cytoplasmic (EC 6.1.1.22).
AK294364 - Homo sapiens cDNA FLJ52485 complete cds, highly similar to Asparaginyl-tRNA synthetase, cytoplasmic (EC 6.1.1.22).
AK294763 - Homo sapiens cDNA FLJ56692 complete cds, highly similar to Asparaginyl-tRNA synthetase, cytoplasmic (EC 6.1.1.22).
LF343764 - JP 2014500723-A/151267: Polycomb-Associated Non-Coding RNAs.
LF343765 - JP 2014500723-A/151268: Polycomb-Associated Non-Coding RNAs.
LF343767 - JP 2014500723-A/151270: Polycomb-Associated Non-Coding RNAs.
LF343768 - JP 2014500723-A/151271: Polycomb-Associated Non-Coding RNAs.
LF343769 - JP 2014500723-A/151272: Polycomb-Associated Non-Coding RNAs.
JD403241 - Sequence 384265 from Patent EP1572962.
LF343779 - JP 2014500723-A/151282: Polycomb-Associated Non-Coding RNAs.
MA579331 - JP 2018138019-A/151257: Polycomb-Associated Non-Coding RNAs.
MA579333 - JP 2018138019-A/151259: Polycomb-Associated Non-Coding RNAs.
MA579334 - JP 2018138019-A/151260: Polycomb-Associated Non-Coding RNAs.
MA579336 - JP 2018138019-A/151262: Polycomb-Associated Non-Coding RNAs.
MA579337 - JP 2018138019-A/151263: Polycomb-Associated Non-Coding RNAs.
MA579338 - JP 2018138019-A/151264: Polycomb-Associated Non-Coding RNAs.
MA579339 - JP 2018138019-A/151265: Polycomb-Associated Non-Coding RNAs.
MA579341 - JP 2018138019-A/151267: Polycomb-Associated Non-Coding RNAs.
MA579342 - JP 2018138019-A/151268: Polycomb-Associated Non-Coding RNAs.
MA579344 - JP 2018138019-A/151270: Polycomb-Associated Non-Coding RNAs.
MA579345 - JP 2018138019-A/151271: Polycomb-Associated Non-Coding RNAs.
MA579346 - JP 2018138019-A/151272: Polycomb-Associated Non-Coding RNAs.
MA579356 - JP 2018138019-A/151282: Polycomb-Associated Non-Coding RNAs.
MA446652 - JP 2018138019-A/18578: Polycomb-Associated Non-Coding RNAs.

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

Reactome (by CSHL, EBI, and GO)

Protein O43776 (Reactome details) participates in the following event(s):

R-HSA-379996 asparagine + tRNA(Asn) + ATP => Asn-tRNA(Asn) + AMP + pyrophosphate
R-HSA-379716 Cytosolic 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: B4DG16, ENST00000256854.1, ENST00000256854.2, ENST00000256854.3, ENST00000256854.4, ENST00000256854.5, ENST00000256854.6, ENST00000256854.7, ENST00000256854.8, ENST00000256854.9, NARS , NARS1 , NM_004539, NRS , O43776, Q53GU6, SYNC_HUMAN, uc317fwk.1, uc317fwk.2
UCSC ID: ENST00000256854.10_7
RefSeq Accession: NM_004539.4
Protein: O43776 (aka SYNC_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.