VARS1 (valyl-tRNA synthetase 1) - Rat Genome Database

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Gene: VARS1 (valyl-tRNA synthetase 1) Chlorocebus sabaeus
Analyze
Symbol: VARS1
Name: valyl-tRNA synthetase 1
RGD ID: 18741537
Description: ENCODES a protein that exhibits valine-tRNA ligase activity (ortholog); INVOLVED IN aminoacyl-tRNA metabolism involved in translational fidelity (inferred); translation (inferred); tRNA aminoacylation for protein translation (inferred); ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); microcephaly (ortholog); FOUND IN cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: valine--tRNA ligase; VARS
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,228,217 - 40,245,366 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1740,228,938 - 40,245,287 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604431,690,810 - 31,707,770 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
VARS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,228,217 - 40,245,366 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1740,228,938 - 40,245,287 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604431,690,810 - 31,707,770 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
VARS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,777,518 - 31,795,752 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,777,518 - 31,795,752 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,745,295 - 31,763,529 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,853,274 - 31,871,691 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,853,276 - 31,871,489NCBI
Celera633,343,541 - 33,361,958 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,531,700 - 31,550,120 (-)NCBIHuRef
CHM1_1631,747,431 - 31,765,847 (-)NCBICHM1_1
T2T-CHM13v2.0631,630,565 - 31,648,800 (-)NCBIT2T-CHM13v2.0
Vars1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,219,895 - 35,235,304 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,219,963 - 35,235,298 (+)EnsemblGRCm39 Ensembl
GRCm381735,000,907 - 35,016,329 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,000,987 - 35,016,322 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,137,852 - 35,153,274 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,609,189 - 34,624,381 (+)NCBIMGSCv36mm8
Celera1738,097,133 - 38,112,555 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.54NCBI
Vars1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,810,427 - 3,825,193 (-)NCBIGRCr8
mRatBN7.2203,805,774 - 3,820,468 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,805,776 - 3,820,298 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,505,469 - 4,519,835 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,867,526 - 3,881,892 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,405,405 - 4,419,709 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,993,539 - 5,008,259 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,993,560 - 5,008,262 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,066,577 - 7,081,275 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,874,447 - 3,888,969 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1203,876,357 - 3,879,992 (-)NCBI
Celera204,206,200 - 4,220,724 (+)NCBICelera
Cytogenetic Map20p12NCBI
Vars1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437309,032 - 318,989 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955437308,709 - 320,084 (-)NCBIChiLan1.0ChiLan1.0
VARS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2546,254,528 - 46,272,951 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1642,216,023 - 42,234,445 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0631,438,663 - 31,456,926 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1632,325,925 - 32,343,276 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,325,931 - 32,343,276 (-)Ensemblpanpan1.1panPan2
VARS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,254,954 - 1,269,242 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,254,952 - 1,269,208 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,391,480 - 1,405,019 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0121,398,209 - 1,411,767 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl121,398,205 - 1,411,717 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1121,257,430 - 1,270,981 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0121,324,594 - 1,338,144 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0121,392,511 - 1,406,073 (-)NCBIUU_Cfam_GSD_1.0
Vars1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,795,720 - 35,808,374 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367271,752,953 - 1,765,624 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367271,752,953 - 1,765,624 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VARS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,886,138 - 23,899,738 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,886,132 - 23,899,265 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Vars1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475424,430,920 - 24,442,110 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475424,430,500 - 24,442,181 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 36 2 41
Low 18 19
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000006836   ⟹   ENSCSAP00000005030
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1740,228,938 - 40,245,287 (+)Ensembl
RefSeq Acc Id: XM_007973084   ⟹   XP_007971275
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11740,228,432 - 40,245,366 (+)NCBI
Vero_WHO_p1.0NW_02366604431,690,810 - 31,707,754 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007973085   ⟹   XP_007971276
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11740,228,217 - 40,245,366 (+)NCBI
Vero_WHO_p1.0NW_02366604431,690,810 - 31,707,770 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007971275 (Get FASTA)   NCBI Sequence Viewer  
  XP_007971276 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000005030
  ENSCSAP00000005030.1
Reference Protein Sequences
RefSeq Acc Id: XP_007971276   ⟸   XM_007973085
- Peptide Label: isoform X2
- UniProtKB: A0A0D9R8U1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007971275   ⟸   XM_007973084
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCSAP00000005030   ⟸   ENSCSAT00000006836


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000008784 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000006836.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.380 UniProtKB/TrEMBL
  1.20.1050.10 UniProtKB/TrEMBL
  3.40.50.620 UniProtKB/TrEMBL
  3.90.740.10 UniProtKB/TrEMBL
InterPro aa-tRNA-synth_I_CS UniProtKB/TrEMBL
  aa-tRNA-synth_Ia UniProtKB/TrEMBL
  Anticodon_Ia_Val UniProtKB/TrEMBL
  Glutathione-S-Trfase_C-like UniProtKB/TrEMBL
  Glutathione-S-Trfase_C_sf UniProtKB/TrEMBL
  GST_C UniProtKB/TrEMBL
  M/V/L/I-tRNA-synth_anticd-bd UniProtKB/TrEMBL
  Rossmann-like_a/b/a_fold UniProtKB/TrEMBL
  tRNAsynth_Ia_anticodon-bd UniProtKB/TrEMBL
  Val-tRNA_synth_C_sf UniProtKB/TrEMBL
  Val/Leu/Ile-tRNA-synth_edit UniProtKB/TrEMBL
  Valyl-tRNA_ligase UniProtKB/TrEMBL
NCBI Gene VARS1 ENTREZGENE
PANTHER PTHR11946 UniProtKB/TrEMBL
  VALINE--TRNA LIGASE UniProtKB/TrEMBL
Pfam Anticodon_1 UniProtKB/TrEMBL
  GST_C UniProtKB/TrEMBL
  tRNA-synt_1 UniProtKB/TrEMBL
PRINTS TRNASYNTHVAL UniProtKB/TrEMBL
PROSITE AA_TRNA_LIGASE_I UniProtKB/TrEMBL
  GST_CTER UniProtKB/TrEMBL
Superfamily-SCOP Nucleotidylyl transferase UniProtKB/TrEMBL
  SSF47323 UniProtKB/TrEMBL
  SSF47616 UniProtKB/TrEMBL
  SSF50677 UniProtKB/TrEMBL
UniProt A0A0D9R8U1 ENTREZGENE, UniProtKB/TrEMBL