Mouse Gene Dars2 (ENSMUST00000035430.3) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus aspartyl-tRNA synthetase 2 (mitochondrial) (Dars2), mRNA. (from RefSeq NM_172644)
Gencode Transcript: ENSMUST00000035430.3
Gencode Gene: ENSMUSG00000026709.10
Transcript (Including UTRs)
   Position: mm10 chr1:161,040,601-161,070,658 Size: 30,058 Total Exon Count: 17 Strand: -
Coding Region
   Position: mm10 chr1:161,041,716-161,070,116 Size: 28,401 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:161,040,601-161,070,658)mRNA (may differ from genome)Protein (653 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SYDM_MOUSE
DESCRIPTION: RecName: Full=Aspartate--tRNA ligase, mitochondrial; EC=6.1.1.12; AltName: Full=Aspartyl-tRNA synthetase; Short=AspRS; Flags: Precursor;
CATALYTIC ACTIVITY: ATP + L-aspartate + tRNA(Asp) = AMP + diphosphate + L-aspartyl-tRNA(Asp).
SUBUNIT: Homodimer (By similarity).
SUBCELLULAR LOCATION: Mitochondrion matrix (By similarity).
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


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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -198.20542-0.366 Picture PostScript Text
3' UTR -268.201115-0.241 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
IPR004524 - Asp-tRNA-ligase_IIb_bac/mt
IPR002312 - Asp/Asn-tRNA-synth_IIb
IPR004115 - GAD_dom
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
PF02938 - GAD domain

SCOP Domains:
101756 - Hypothetical protein YgiW
50249 - Nucleic acid-binding proteins
55681 - Class II aaRS and biotin synthetases
55261 - GAD domain-like

ModBase Predicted Comparative 3D Structure on Q8BIP0
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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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologGenome BrowserNo ortholog
Gene Details    Gene Details
Gene Sorter    Gene Sorter
GenBankRGDEnsemblEnsemblWormBaseSGD
Protein SequenceProtein Sequence  Protein Sequence 
AlignmentAlignment  Alignment 

-  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:0004815 aspartate-tRNA ligase activity
GO:0005524 ATP binding
GO:0016874 ligase activity
GO:0042803 protein homodimerization activity
GO:0050560 aspartate-tRNA(Asn) ligase activity

Biological Process:
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0043039 tRNA aminoacylation
GO:0070145 mitochondrial asparaginyl-tRNA aminoacylation

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix


-  Descriptions from all associated GenBank mRNAs
  AK030952 - Mus musculus adult male thymus cDNA, RIKEN full-length enriched library, clone:5830468K18 product:similar to DJ383J4.4 (A NOVEL PROTEIN SIMILAR TO ASPARTYL-TRNA SYNTHETASE) (FRAGMENT) [Homo sapiens], full insert sequence.
AK138809 - Mus musculus 0 day neonate thymus cDNA, RIKEN full-length enriched library, clone:A430081K17 product:similar to DJ383J4.4 (A novel protein similar to aspartyl-tRNA synthetase) (Fragment) [Homo sapiens], full insert sequence.
AK033634 - Mus musculus adult male cecum cDNA, RIKEN full-length enriched library, clone:9130204O11 product:hypothetical tRNA synthetases, class II (D, K and N) protein, full insert sequence.
BC089191 - Mus musculus aspartyl-tRNA synthetase 2 (mitochondrial), mRNA (cDNA clone MGC:99963 IMAGE:30473852), complete cds.
AK083300 - Mus musculus adult male liver tumor cDNA, RIKEN full-length enriched library, clone:C730049B06 product:weakly similar to ASPARTYL-TRNA SYNTHETASE (EC 6.1.1.12) (FRAGMENT) [Anaerocellum thermophilum], full insert sequence.
AK154133 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630003N12 product:similar to DJ383J4.4 (A novel protein similar to aspartyl-tRNA synthetase) (Fragment) [Homo sapiens], full insert sequence.
AK154348 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630022H23 product:DJ383J4.4 (A novel protein similar to aspartyl-tRNA synthetase) (Fragment) homolog [Homo sapiens], full insert sequence.
BC076606 - Mus musculus aspartyl-tRNA synthetase 2 (mitochondrial), mRNA (cDNA clone MGC:100105 IMAGE:30625515), complete cds.
BC057943 - Mus musculus aspartyl-tRNA synthetase 2 (mitochondrial), mRNA (cDNA clone IMAGE:5346498).
BC046429 - Mus musculus aspartyl-tRNA synthetase 2 (mitochondrial), mRNA (cDNA clone IMAGE:3590247), partial cds.
AK164885 - Mus musculus 15 days embryo head cDNA, RIKEN full-length enriched library, clone:D930047M23 product:similar to DJ383J4.4 (A novel protein similar to aspartyl-tRNA synthetase) (Fragment) [Homo sapiens], full insert sequence.
AK037337 - Mus musculus 16 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A130008F13 product:CDNA FLJ12692 FIS, CLONE NT2RM4002623, WEAKLY SIMILAR TO ASPARTYL-TRNA SYNTHETASE (EC 6.1.1.12) homolog [Homo sapiens], full insert sequence.
AK204411 - Mus musculus cDNA, clone:Y1G0148F10, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK048454 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130061P21 product:weakly similar to ASPARTYL-TRNA SYNTHETASE (EC 6.1.1.12) (ASPARTATE--TRNA LIGASE) (ASPRS) [Bacillus subtilis], full insert sequence.
AK207367 - Mus musculus cDNA, clone:Y2G0107M13, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK214891 - Mus musculus cDNA, clone:Y2G0133F03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK216320 - Mus musculus cDNA, clone:Y2G0137P14, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK206226 - Mus musculus cDNA, clone:Y2G0104C17, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK210088 - Mus musculus cDNA, clone:Y2G0117E17, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK181170 - Mus musculus cDNA, clone:Y0G0117C24, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK216242 - Mus musculus cDNA, clone:Y2G0137L06, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK184189 - Mus musculus cDNA, clone:Y0G0129B01, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK184192 - Mus musculus cDNA, clone:Y0G0129B06, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK180299 - Mus musculus cDNA, clone:Y0G0113K15, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK194138 - Mus musculus cDNA, clone:Y1G0114G19, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.
AK204542 - Mus musculus cDNA, clone:Y1G0148M18, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000035430, based on BLAT search.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu00970 - Aminoacyl-tRNA biosynthesis

BioCyc Knowledge Library
TRNA-CHARGING-PWY - tRNA charging pathway

-  Other Names for This Gene
  Alternate Gene Symbols: NM_172644, Q5FWV4, Q8BIP0, SYDM_MOUSE, uc007dey.1, uc007dey.2, uc007dey.3
UCSC ID: uc007dey.3
RefSeq Accession: NM_172644
Protein: Q8BIP0 (aka SYDM_MOUSE)
CCDS: CCDS15413.1

-  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.