Vars1 (valyl-tRNA synthetase 1) - Rat Genome Database

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Gene: Vars1 (valyl-tRNA synthetase 1) Rattus norvegicus
Analyze
Symbol: Vars1
Name: valyl-tRNA synthetase 1
RGD ID: 3950
Description: Enables valine-tRNA ligase activity. Predicted to be involved in valyl-tRNA aminoacylation. Predicted to be located in endoplasmic reticulum. Predicted to be active in cytosol. Orthologous to human VARS1 (valyl-tRNA synthetase 1); PARTICIPATES IN aminoacyl-tRNA biosynthetic pathway; valine, leucine and isoleucine biosynthetic pathway; INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Bat6; G7a; TrsVal; valine--tRNA ligase; valRS; valyl-tRNA synthetase; valyl-tRNA synthetase 2; Vars; Vars2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,810,427 - 3,825,193 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl203,810,429 - 3,824,951 (-)EnsemblGRCr8
mRatBN7.2203,805,774 - 3,820,468 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,805,776 - 3,820,298 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx204,505,469 - 4,519,835 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,867,526 - 3,881,892 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,405,405 - 4,419,709 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,993,539 - 5,008,259 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,993,560 - 5,008,262 (+)Ensemblrn6Rnor6.0
Rnor_5.0207,066,577 - 7,081,275 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4203,874,447 - 3,888,969 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera204,206,200 - 4,220,724 (+)NCBICelera
RGSC_v3.1203,876,357 - 3,879,992 (-)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,6-dimethoxyphenol  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
acrylamide  (ISO)
Aflatoxin B2 alpha  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cobalt dichloride  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (EXP,ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenofibrate  (EXP,ISO)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
furfural  (ISO)
gentamycin  (EXP)
GSK-J4  (ISO)
ibuprofen  (EXP,ISO)
ifosfamide  (ISO)
metformin  (EXP)
methyl methanesulfonate  (ISO)
nickel atom  (ISO)
nitrates  (ISO)
ochratoxin A  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triptonide  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IBA,IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Cloning, sequencing and expression of a cDNA encoding mammalian valyl-tRNA synthetase. Vilalta A, etal., Gene 1993 Jan 30;123(2):181-6.
Additional References at PubMed
PMID:12477932   PMID:14651853   PMID:15060004   PMID:24625528   PMID:29476059   PMID:30053369  


Genomics

Comparative Map Data
Vars1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,810,427 - 3,825,193 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl203,810,429 - 3,824,951 (-)EnsemblGRCr8
mRatBN7.2203,805,774 - 3,820,468 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,805,776 - 3,820,298 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx204,505,469 - 4,519,835 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,867,526 - 3,881,892 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,405,405 - 4,419,709 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,993,539 - 5,008,259 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,993,560 - 5,008,262 (+)Ensemblrn6Rnor6.0
Rnor_5.0207,066,577 - 7,081,275 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4203,874,447 - 3,888,969 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera204,206,200 - 4,220,724 (+)NCBICelera
RGSC_v3.1203,876,357 - 3,879,992 (-)NCBI
Cytogenetic Map20p12NCBI
VARS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,777,518 - 31,795,752 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,777,518 - 31,795,950 (-)Ensemblhg38GRCh38
GRCh37631,745,295 - 31,763,529 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,853,274 - 31,871,691 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381735,000,907 - 35,016,329 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,000,987 - 35,016,322 (+)Ensemblmm10GRCm38
MGSCv371735,137,852 - 35,153,274 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361734,609,189 - 34,624,381 (+)NCBIMGSCv36mm8
Celera1738,097,133 - 38,112,555 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.54NCBI
Vars1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437309,032 - 318,989 (-)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha121,391,480 - 1,405,019 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0121,398,209 - 1,411,767 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 Ensembl723,886,130 - 23,899,738 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1723,886,132 - 23,899,265 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604431,690,810 - 31,707,770 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475424,430,500 - 24,442,181 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Vars1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1187,600,580 - 7,616,189 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Vars1
277 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:36
Count of miRNA genes:35
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000001160
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015332005306452Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2016693431Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362632310078622Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2016693431Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036263239244918Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
RH134540  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,805,787 - 3,806,488 (-)MAPPERmRatBN7.2
Rnor_6.0205,007,545 - 5,008,245NCBIRnor6.0
Rnor_5.0207,080,561 - 7,081,261UniSTSRnor5.0
RGSC_v3.4203,874,459 - 3,875,159UniSTSRGSC3.4
Celera204,220,012 - 4,220,712UniSTS
RH 3.4 Map2052.52UniSTS
Cytogenetic Map20p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 161 91 90 59 92 59 6 356 192 11 140 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000001160   ⟹   ENSRNOP00000001160
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl203,810,429 - 3,824,951 (-)Ensembl
mRatBN7.2 Ensembl203,805,776 - 3,820,298 (-)Ensembl
Rnor_6.0 Ensembl204,993,744 - 5,008,262 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000081628   ⟹   ENSRNOP00000069473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,993,560 - 4,996,647 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000087594
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,006,058 - 5,008,259 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000087861   ⟹   ENSRNOP00000072696
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,805,776 - 3,820,298 (-)Ensembl
Rnor_6.0 Ensembl204,993,690 - 5,008,255 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000122662   ⟹   ENSRNOP00000108295
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl203,810,429 - 3,823,334 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000160860   ⟹   ENSRNOP00000104508
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl203,810,429 - 3,824,951 (-)Ensembl
RefSeq Acc Id: NM_053292   ⟹   NP_445744
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,810,429 - 3,824,951 (-)NCBI
mRatBN7.2203,805,776 - 3,820,298 (-)NCBI
Rnor_6.0204,993,735 - 5,008,257 (+)NCBI
Rnor_5.0207,066,577 - 7,081,275 (+)NCBI
RGSC_v3.4203,874,447 - 3,888,969 (-)RGD
Celera204,206,200 - 4,220,724 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256047   ⟹   XP_006256109
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,810,427 - 3,825,193 (-)NCBI
mRatBN7.2203,805,774 - 3,820,468 (-)NCBI
Rnor_6.0204,993,539 - 5,008,259 (+)NCBI
Rnor_5.0207,066,577 - 7,081,275 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098431   ⟹   XP_038954359
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,810,427 - 3,820,970 (-)NCBI
mRatBN7.2203,805,774 - 3,816,217 (-)NCBI
RefSeq Acc Id: NP_445744   ⟸   NM_053292
- UniProtKB: Q6MG65 (UniProtKB/Swiss-Prot),   Q04462 (UniProtKB/Swiss-Prot),   A6KTQ1 (UniProtKB/TrEMBL),   A0A8L2UQS2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256109   ⟸   XM_006256047
- Peptide Label: isoform X1
- UniProtKB: Q6MG65 (UniProtKB/Swiss-Prot),   Q04462 (UniProtKB/Swiss-Prot),   A6KTQ1 (UniProtKB/TrEMBL),   A0A8L2UQS2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000072696   ⟸   ENSRNOT00000087861
Ensembl Acc Id: ENSRNOP00000069473   ⟸   ENSRNOT00000081628
Ensembl Acc Id: ENSRNOP00000001160   ⟸   ENSRNOT00000001160
RefSeq Acc Id: XP_038954359   ⟸   XM_039098431
- Peptide Label: isoform X2
- UniProtKB: A6KTQ3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000108295   ⟸   ENSRNOT00000122662
Ensembl Acc Id: ENSRNOP00000104508   ⟸   ENSRNOT00000160860
Protein Domains
Aminoacyl-tRNA synthetase class Ia   GST C-terminal   Methionyl/Valyl/Leucyl/Isoleucyl-tRNA synthetase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q04462-F1-model_v2 AlphaFold Q04462 1-1264 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701382
Promoter ID:EPDNEW_R11903
Type:initiation region
Name:Vars_1
Description:valyl-tRNA synthetase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11905  EPDNEW_R11904  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,993,516 - 4,993,576EPDNEW
RGD ID:13701390
Promoter ID:EPDNEW_R11904
Type:initiation region
Name:Vars_3
Description:valyl-tRNA synthetase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11905  EPDNEW_R11903  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,993,682 - 4,993,742EPDNEW
RGD ID:13701381
Promoter ID:EPDNEW_R11905
Type:initiation region
Name:Vars_2
Description:valyl-tRNA synthetase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11903  EPDNEW_R11904  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,994,026 - 4,994,086EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3950 AgrOrtholog
BioCyc Gene G2FUF-4629 BioCyc
BioCyc Pathway TRNA-CHARGING-PWY [tRNA charging] BioCyc
BioCyc Pathway Image TRNA-CHARGING-PWY BioCyc
Ensembl Genes ENSRNOG00000000867 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000001160 ENTREZGENE
  ENSRNOT00000001160.7 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.287.380 UniProtKB/Swiss-Prot
  1.20.1050.10 UniProtKB/Swiss-Prot
  3.40.50.620 UniProtKB/Swiss-Prot
  3.90.740.10 UniProtKB/Swiss-Prot
  Isoleucyl-tRNA Synthetase, Domain 1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7445434 IMAGE-MGC_LOAD
InterPro aa-tRNA-synth_I_CS UniProtKB/Swiss-Prot
  aa-tRNA-synth_Ia UniProtKB/Swiss-Prot
  Anticodon_Ia_Val UniProtKB/Swiss-Prot
  Glutathione-S-Trfase_C-like UniProtKB/Swiss-Prot
  Glutathione-S-Trfase_C_sf UniProtKB/Swiss-Prot
  GST_C UniProtKB/Swiss-Prot
  M/V/L/I-tRNA-synth_anticd-bd UniProtKB/Swiss-Prot
  Rossmann-like_a/b/a_fold UniProtKB/Swiss-Prot
  tRNAsynth_Ia_anticodon-bd UniProtKB/Swiss-Prot
  Val-tRNA_synth_C_sf UniProtKB/Swiss-Prot
  Val/Leu/Ile-tRNA-synth_edit UniProtKB/Swiss-Prot
  Valyl-tRNA_ligase UniProtKB/Swiss-Prot
KEGG Report rno:25009 UniProtKB/Swiss-Prot
MGC_CLONE MGC:116417 IMAGE-MGC_LOAD
NCBI Gene 25009 ENTREZGENE
PANTHER PTHR11946 UniProtKB/Swiss-Prot
  VALINE--TRNA LIGASE UniProtKB/Swiss-Prot
Pfam Anticodon_1 UniProtKB/Swiss-Prot
  GST_C UniProtKB/Swiss-Prot
  tRNA-synt_1 UniProtKB/Swiss-Prot
PhenoGen Vars1 PhenoGen
PRINTS TRNASYNTHVAL UniProtKB/Swiss-Prot
PROSITE AA_TRNA_LIGASE_I UniProtKB/Swiss-Prot
  GST_CTER UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000000867 RatGTEx
Superfamily-SCOP Nucleotidylyl transferase UniProtKB/Swiss-Prot
  SSF47323 UniProtKB/Swiss-Prot
  SSF47616 UniProtKB/Swiss-Prot
  SSF50677 UniProtKB/Swiss-Prot
UniProt A0A8L2UQS2 ENTREZGENE
  A0ABK0LG25_RAT UniProtKB/TrEMBL
  A0ABK0LQZ9_RAT UniProtKB/TrEMBL
  A6KTQ1 ENTREZGENE, UniProtKB/TrEMBL
  A6KTQ3 ENTREZGENE, UniProtKB/TrEMBL
  Q04462 ENTREZGENE
  Q6MG65 ENTREZGENE
  SYVC_RAT UniProtKB/Swiss-Prot
UniProt Secondary Q6MG65 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-08 Vars1  valyl-tRNA synthetase 1  Vars  valyl-tRNA synthetase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Vars  valyl-tRNA synthetase  Vars2  valyl-tRNA synthetase 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Vars2  Valyl-tRNA synthetase 2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a tRNA 3'-end-binding motif, KMSKS, and putative Val-binding motif, EWCISRQ 634466