Human Gene DARS1 (ENST00000264161.9_7) from GENCODE V47lift37
  Description: aspartyl-tRNA synthetase 1, transcript variant 1 (from RefSeq NM_001349.4)
Gencode Transcript: ENST00000264161.9_7
Gencode Gene: ENSG00000115866.11_15
Transcript (Including UTRs)
   Position: hg19 chr2:136,663,451-136,743,196 Size: 79,746 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chr2:136,664,886-136,743,038 Size: 78,153 Coding Exon Count: 16 

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 (chr2:136,663,451-136,743,196)mRNA (may differ from genome)Protein (501 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
OMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SYDC_HUMAN
DESCRIPTION: RecName: Full=Aspartate--tRNA ligase, cytoplasmic; EC=6.1.1.12; AltName: Full=Aspartyl-tRNA synthetase; Short=AspRS; AltName: Full=Cell proliferation-inducing gene 40 protein;
FUNCTION: Catalyzes the specific attachment of an amino acid to its cognate tRNA in a 2 step reaction: the amino acid (AA) is first activated by ATP to form AA-AMP and then transferred to the acceptor end of the tRNA.
CATALYTIC ACTIVITY: ATP + L-aspartate + tRNA(Asp) = AMP + diphosphate + L-aspartyl-tRNA(Asp).
SUBUNIT: Homodimer; also part of a multisubunit complex that groups AIMP1, AIMP2, EEF1A1 and tRNA ligases for Arg, Asp, Glu, Gln, Ile, Leu, Lys, Met and Pro.
INTERACTION: P62993:GRB2; NbExp=2; IntAct=EBI-358730, EBI-401755;
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: 72.69 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1126.19 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 -66.40158-0.420 Picture PostScript Text
3' UTR -280.701435-0.196 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
IPR004523 - Asp-tRNA_synthase
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
55973 - S-adenosylmethionine synthetase

ModBase Predicted Comparative 3D Structure on P14868
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 orthologNo orthologGenome Browser
Gene DetailsGene Details Gene Details Gene Details
Gene SorterGene Sorter Gene Sorter Gene Sorter
 RGDEnsembl  SGD
     Protein Sequence
     Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004046 aminoacylase activity
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004815 aspartate-tRNA ligase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016874 ligase activity

Biological Process:
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006422 aspartyl-tRNA aminoacylation
GO:0065003 macromolecular complex assembly

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016020 membrane
GO:0017101 aminoacyl-tRNA synthetase multienzyme complex
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  J05032 - Human aspartyl-tRNA synthetase alpha-2 subunit mRNA, complete cds.
CR749809 - Homo sapiens mRNA; cDNA DKFZp781B11202 (from clone DKFZp781B11202).
AK222476 - Homo sapiens mRNA for aspartyl-tRNA synthetase variant, clone: adKA02412.
BC000629 - Homo sapiens aspartyl-tRNA synthetase, mRNA (cDNA clone MGC:1562 IMAGE:3344322), complete cds.
AK290607 - Homo sapiens cDNA FLJ77907 complete cds, highly similar to Homo sapiens aspartyl-tRNA synthetase, mRNA.
AK129521 - Homo sapiens cDNA FLJ26010 fis, clone HRT04982, highly similar to Aspartyl-tRNA synthetase (EC 6.1.1.12).
BC107749 - Homo sapiens aspartyl-tRNA synthetase, mRNA (cDNA clone MGC:111579 IMAGE:6709590), complete cds.
HM005505 - Homo sapiens clone HTL-T-192 testicular tissue protein Li 192 mRNA, complete cds.
AY762100 - Homo sapiens cell proliferation-inducing protein 40 mRNA, complete cds.
BT006710 - Homo sapiens aspartyl-tRNA synthetase mRNA, complete cds.
DQ890741 - Synthetic construct clone IMAGE:100003371; FLH165600.01X; RZPDo839E05160D aspartyl-tRNA synthetase (DARS) gene, encodes complete protein.
KJ891028 - Synthetic construct Homo sapiens clone ccsbBroadEn_00422 DARS gene, encodes complete protein.
DQ893912 - Synthetic construct Homo sapiens clone IMAGE:100008372; FLH165596.01L; RZPDo839E05159D aspartyl-tRNA synthetase (DARS) gene, encodes complete protein.
CU674308 - Synthetic construct Homo sapiens gateway clone IMAGE:100017681 5' read DARS mRNA.
JD022454 - Sequence 3478 from Patent EP1572962.
JD028555 - Sequence 9579 from Patent EP1572962.
JD282671 - Sequence 263695 from Patent EP1572962.
JD308023 - Sequence 289047 from Patent EP1572962.
JD565020 - Sequence 546044 from Patent EP1572962.
JD141296 - Sequence 122320 from Patent EP1572962.

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

Reactome (by CSHL, EBI, and GO)

Protein P14868 (Reactome details) participates in the following event(s):

R-HSA-380008 lysine + tRNA(Lys) + ATP => Lys-tRNA(Lys) + AMP + pyrophosphate
R-HSA-379974 leucine + tRNA(Leu) + ATP => Leu-tRNA(Leu) + AMP + pyrophosphate
R-HSA-379861 glutamate + tRNA(Glu) + ATP => Glu-tRNA(Glu) + AMP + pyrophosphate
R-HSA-379893 isoleucine + tRNA(Ile) + ATP => Ile-tRNA(Ile) + AMP + pyrophosphate
R-HSA-379865 proline + tRNA(Pro) + ATP => Pro-tRNA(Pro) + AMP + pyrophosphate
R-HSA-379994 methionine + tRNA(Met) + ATP => Met-tRNA(Met) + AMP + pyrophosphate
R-HSA-379867 aspartate + tRNA(Asp) + ATP => Asp-tRNA(Asp) + AMP + pyrophosphate
R-HSA-379982 glutamine + tRNA(Gln) + ATP => Gln-tRNA(Gln) + AMP + pyrophosphate
R-HSA-379993 arginine + tRNA(Arg) + ATP => Arg-tRNA(Arg) + AMP + pyrophosphate
R-HSA-2408546 tRNA(Met) is selenomethionylated to SeMet-tRNA(Met) by multisynthetase complex
R-HSA-379716 Cytosolic tRNA aminoacylation
R-HSA-2408517 SeMet incorporation into proteins
R-HSA-379724 tRNA Aminoacylation
R-HSA-2408522 Selenoamino acid metabolism
R-HSA-72766 Translation
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-392499 Metabolism of proteins
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: A8K3J2, D3DP77, DARS, DARS1 , ENST00000264161.1, ENST00000264161.2, ENST00000264161.3, ENST00000264161.4, ENST00000264161.5, ENST00000264161.6, ENST00000264161.7, ENST00000264161.8, NM_001349, P14868, PIG40, Q2TNI3, Q32Q69, Q53HV4, Q53YC5, Q68CR9, Q9BW52, SYDC_HUMAN, uc317hpr.1, uc317hpr.2
UCSC ID: ENST00000264161.9_7
RefSeq Accession: NM_001349.4
Protein: P14868 (aka SYDC_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.