Summary?
GeneID 57176
Symbol VARS2
Synonyms COXPD20|VALRS|VARS2L|VARSL
Description valyl-tRNA synthetase 2, mitochondrial
Reference MIM:612802|HGNC:HGNC:21642|Ensembl:ENSG00000137411|HPRD:11670|Vega:OTTHUMG00000031263
Gene type protein-coding
Map location 6p21.33
Pascal p-value 1E-12
Sherlock p-value 0.975
eGene Anterior cingulate cortex BA24
Caudate basal ganglia
Cerebellar Hemisphere
Cerebellum
Cortex
Frontal Cortex BA9
Hippocampus
Hypothalamus
Nucleus accumbens basal ganglia
Putamen basal ganglia
Myers' cis & trans
Meta

Gene in Data Sources
基因集名称 Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
GSMA_I Genome scan meta-analysis Psr: 0.033

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs1264344 chr6 30800576 VARS2 57176 0.19 cis
rs7738138 chr6 30887343 VARS2 57176 0.02 cis
rs753725 chr6 30890870 VARS2 57176 0.01 cis
rs2532921 chr6 30922569 VARS2 57176 0 cis
rs2532921 chr6 30922569 VARS2 57176 0.13 trans
rs1264345 6 30800068 VARS2 ENSG00000137411.12 3.13E-7 0 -81914 gtex_brain_ba24
rs1264344 6 30800577 VARS2 ENSG00000137411.12 1.989E-7 0 -81405 gtex_brain_ba24
rs540795529 6 30800869 VARS2 ENSG00000137411.12 1.989E-7 0 -81113 gtex_brain_ba24
rs1264342 6 30802017 VARS2 ENSG00000137411.12 8.653E-10 0 -79965 gtex_brain_ba24
rs2535338 6 30804932 VARS2 ENSG00000137411.12 1.989E-7 0 -77050 gtex_brain_ba24
rs2517582 6 30808762 VARS2 ENSG00000137411.12 8.104E-9 0 -73220 gtex_brain_ba24
rs2535337 6 30810084 VARS2 ENSG00000137411.12 2.687E-10 0 -71898 gtex_brain_ba24
rs2535336 6 30810654 VARS2 ENSG00000137411.12 2.096E-10 0 -71328 gtex_brain_ba24
rs2535335 6 30812497 VARS2 ENSG00000137411.12 1.859E-10 0 69485 gtex_brain_ba24
rs2517577 6 30813292 VARS2 ENSG00000137411.12 2.63E-10 0 68690 gtex_brain_ba24
rs2844664 6 30815945 VARS2 ENSG00000137411.12 2.692E-10 0 -66037年 gtex_brain_ba24
rs2844663 6 30815951 VARS2 ENSG00000137411.12 2.104E-10 0 66031 gtex_brain_ba24
rs2535331 6 30816270 VARS2 ENSG00000137411.12 2.692E-10 0 65712 gtex_brain_ba24
rs2844662 6 30817879 VARS2 ENSG00000137411.12 2.104E-10 0 64103 gtex_brain_ba24
rs2517575 6 30819465 VARS2 ENSG00000137411.12 2.104E-10 0 62517 gtex_brain_ba24
rs2535330 6 30824642 VARS2 ENSG00000137411.12 2.692E-10 0 -57340 gtex_brain_ba24
rs2844658 6 30825812 VARS2 ENSG00000137411.12 2.692E-10 0 -56170 gtex_brain_ba24
rs2535327 6 30826904 VARS2 ENSG00000137411.12 4.44E-10 0 -55078 gtex_brain_ba24
rs2535326 6 30832063 VARS2 ENSG00000137411.12 2.104E-10 0 -49919 gtex_brain_ba24
rs2535325 6 30833081 VARS2 ENSG00000137411.12 2.692E-10 0 -48901 gtex_brain_ba24
rs9278786 6 30836489 VARS2 ENSG00000137411.12 2.692E-10 0 -45493 gtex_brain_ba24
rs2844655 6 30837538 VARS2 ENSG00000137411.12 4.44E-10 0 -44444 gtex_brain_ba24
rs3130657 6 30837646 VARS2 ENSG00000137411.12 2.692E-10 0 -44336 gtex_brain_ba24
rs2844654 6 30838688 VARS2 ENSG00000137411.12 2.692E-10 0 -43294 gtex_brain_ba24
rs2535339 6 30839430 VARS2 ENSG00000137411.12 2.692E-10 0 -42552 gtex_brain_ba24
rs2517573 6 30840147 VARS2 ENSG00000137411.12 2.442E-10 0 -41835 gtex_brain_ba24
rs9278790 6 30842095 VARS2 ENSG00000137411.12 2.404E-8 0 -39887 gtex_brain_ba24
rs2535329 6 30842674 VARS2 ENSG00000137411.12 4.44E-10 0 -39308 gtex_brain_ba24
rs1264334 6 30844260 VARS2 ENSG00000137411.12 2.104E-10 0 -37722 gtex_brain_ba24
rs1264333 6 30844314 VARS2 ENSG00000137411.12 2.692E-10 0 -37668 gtex_brain_ba24
rs1264332 6 30845563 VARS2 ENSG00000137411.12 2.692E-10 0 -36419 gtex_brain_ba24
rs1264331 6 30846830 VARS2 ENSG00000137411.12 2.692E-10 0 -35152 gtex_brain_ba24
rs1264327 6 30850582 VARS2 ENSG00000137411.12 4.44E-10 0 -31400 gtex_brain_ba24
rs1264320 6 30861000 VARS2 ENSG00000137411.12 2.692E-10 0 -20982 gtex_brain_ba24
rs1264317 6 30864700 VARS2 ENSG00000137411.12 2.692E-10 0 -17282 gtex_brain_ba24
rs1264311 6 30873041 VARS2 ENSG00000137411.12 2.692E-10 0 -8941 gtex_brain_ba24
rs1264309 6 30875899 VARS2 ENSG00000137411.12 2.692E-10 0 6083 gtex_brain_ba24
rs1264307 6 30880757 VARS2 ENSG00000137411.12 2.692E-10 0 -1225 gtex_brain_ba24
rs1264305 6 30882277 VARS2 ENSG00000137411.12 2.692E-10 0 295 gtex_brain_ba24
rs1264303 6 30882513 VARS2 ENSG00000137411.12 2.692E-10 0 531 gtex_brain_ba24
rs1264302 6 30882634 VARS2 ENSG00000137411.12 2.692E-10 0 652 gtex_brain_ba24
rs1264301 6 30882781 VARS2 ENSG00000137411.12 2.692E-10 0 799 gtex_brain_ba24
rs1264300 6 30882856 VARS2 ENSG00000137411.12 2.692E-10 0 874 gtex_brain_ba24
rs1264299 6 30883920 VARS2 ENSG00000137411.12 2.692E-10 0 1938 gtex_brain_ba24
rs527858296 6 30884331 VARS2 ENSG00000137411.12 2.692E-10 0 2349 gtex_brain_ba24
rs1264298 6 30884436 VARS2 ENSG00000137411.12 2.692E-10 0 2454 gtex_brain_ba24
rs1264297 6 30884806 VARS2 ENSG00000137411.12 2.692E-10 0 2824 gtex_brain_ba24
rs9262288 6 30885639 VARS2 ENSG00000137411.12 2.692E-10 0 3657 gtex_brain_ba24
rs9262289 6 30885686 VARS2 ENSG00000137411.12 2.692E-10 0 3704 gtex_brain_ba24
rs9262290 6 30885821 VARS2 ENSG00000137411.12 2.692E-10 0 3839 gtex_brain_ba24
rs374965024 6 30885839 VARS2 ENSG00000137411.12 4.196E-10 0 3857 gtex_brain_ba24
rs9262291 6 30886015 VARS2 ENSG00000137411.12 1.656E-10 0 4033 gtex_brain_ba24
rs9262292 6 30886079 VARS2 ENSG00000137411.12 2.692E-10 0 4097 gtex_brain_ba24
rs9262293 6 30886350 VARS2 ENSG00000137411.12 2.692E-10 0 4368 gtex_brain_ba24
rs9262294 6 30887207 VARS2 ENSG00000137411.12 2.692E-10 0 5225 gtex_brain_ba24
rs7756286 6 30887311 VARS2 ENSG00000137411.12 2.692E-10 0 5329 gtex_brain_ba24
rs7738138 6 30887344 VARS2 ENSG00000137411.12 2.692E-10 0 5362 gtex_brain_ba24
rs2249459 6 30887988 VARS2 ENSG00000137411.12 2.692E-10 0 6006 gtex_brain_ba24
rs2517468 6 30888169 VARS2 ENSG00000137411.12 2.692E-10 0 6187 gtex_brain_ba24
rs2532943 6 30889120 VARS2 ENSG00000137411.12 2.692E-10 0 7138 gtex_brain_ba24
rs2517466 6 30890055 VARS2 ENSG00000137411.12 2.692E-10 0 8073 gtex_brain_ba24
rs887381 6 30890206 VARS2 ENSG00000137411.12 2.692E-10 0 8224 gtex_brain_ba24
rs2074506 6 30890483 VARS2 ENSG00000137411.12 2.692E-10 0 8501 gtex_brain_ba24
rs753726 6 30890569 VARS2 ENSG00000137411.12 2.692E-10 0 8587 gtex_brain_ba24
rs9281079 6 30891705 VARS2 ENSG00000137411.12 1.734E-10 0 9723 gtex_brain_ba24
rs2532942 6 30892322 VARS2 ENSG00000137411.12 2.692E-10 0 10340 gtex_brain_ba24
rs2252760 6 30892377 VARS2 ENSG00000137411.12 2.259E-10 0 10395 gtex_brain_ba24
rs2532940 6 30892592 VARS2 ENSG00000137411.12 2.692E-10 0 10610 gtex_brain_ba24
rs2532939 6 30893226 VARS2 ENSG00000137411.12 2.692E-10 0 11244 gtex_brain_ba24
rs2252856 6 30893251 VARS2 ENSG00000137411.12 2.692E-10 0 11269 gtex_brain_ba24
rs2252863 6 30893428 VARS2 ENSG00000137411.12 2.692E-10 0 11446 gtex_brain_ba24
rs2532938 6 30893831 VARS2 ENSG00000137411.12 2.692E-10 0 11849 gtex_brain_ba24
rs2532937 6 30894344 VARS2 ENSG00000137411.12 2.692E-10 0 12362 gtex_brain_ba24
rs2532936 6 30894408 VARS2 ENSG00000137411.12 2.692E-10 0 12426 gtex_brain_ba24
rs72397672 6 30894416 VARS2 ENSG00000137411.12 1.447平台以及 0 12434 gtex_brain_ba24
rs2532935 6 30894573 VARS2 ENSG00000137411.12 2.692E-10 0 12591 gtex_brain_ba24
rs2517463 6 30895264 VARS2 ENSG00000137411.12 8.782E-10 0 13282 gtex_brain_ba24
rs2532933 6 30895293 VARS2 ENSG00000137411.12 2.692E-10 0 13311 gtex_brain_ba24
rs2394856 6 30895592 VARS2 ENSG00000137411.12 2.692E-10 0 13610 gtex_brain_ba24
rs2532930 6 30895725 VARS2 ENSG00000137411.12 2.692E-10 0 13743 gtex_brain_ba24
rs2517462 6 30896190 VARS2 ENSG00000137411.12 2.692E-10 0 14208 gtex_brain_ba24
rs2517461 6 30896399 VARS2 ENSG00000137411.12 2.692E-10 0 14417 gtex_brain_ba24
rs2532929 6 30897774 VARS2 ENSG00000137411.12 2.682E-9 0 15792 gtex_brain_ba24
rs2532928 6 30898295 VARS2 ENSG00000137411.12 2.695E-10 0 16313 gtex_brain_ba24
rs2532927 6 30898434 VARS2 ENSG00000137411.12 1.437E-9 0 16452 gtex_brain_ba24
rs2532926 6 30898441 VARS2 ENSG00000137411.12 2.692E-10 0 16459 gtex_brain_ba24
rs2517457 6 30898442 VARS2 ENSG00000137411.12 2.692E-10 0 16460 gtex_brain_ba24
rs2844652 6 30898687 VARS2 ENSG00000137411.12 2.692E-10 0 16705 gtex_brain_ba24
rs2253718 6 30900427 VARS2 ENSG00000137411.12 8.985E-7 0 18445 gtex_brain_ba24
rs2243739 6 30909408 VARS2 ENSG00000137411.12 2.754E-10 0 27426 gtex_brain_ba24
rs2844702 6 30912481 VARS2 ENSG00000137411.12 2.692E-10 0 30499 gtex_brain_ba24
rs2844699 6 30918400 VARS2 ENSG00000137411.12 2.798E-10 0 36418 gtex_brain_ba24
rs2517449 6 30919701 VARS2 ENSG00000137411.12 2.692E-10 0 37719 gtex_brain_ba24
rs2240804 6 30920890 VARS2 ENSG00000137411.12 4.44E-10 0 38908 gtex_brain_ba24
rs2532921 6 30922570 VARS2 ENSG00000137411.12 2.692E-10 0 40588 gtex_brain_ba24
rs17189763 6 30923527 VARS2 ENSG00000137411.12 4.44E-10 0 41545 gtex_brain_ba24
rs2532920 6 30923629 VARS2 ENSG00000137411.12 2.691E-10 0 41647 gtex_brain_ba24
rs2844698 6 30931245 VARS2 ENSG00000137411.12 4.723E-9 0 49263 gtex_brain_ba24
rs2854011 6 31311211 VARS2 ENSG00000137411.12 2.665E-7 0 429229 gtex_brain_ba24
rs2517580 6 30810056 VARS2 ENSG00000137411.12 2.013E-6 0 -71926 gtex_brain_putamen_basal
rs2535336 6 30810654 VARS2 ENSG00000137411.12 1.207E-6 0 -71328 gtex_brain_putamen_basal
rs2517579 6 30811164 VARS2 ENSG00000137411.12 2.012E-6 0 -70818 gtex_brain_putamen_basal
rs2535335 6 30812497 VARS2 ENSG00000137411.12 1.332E-6 0 69485 gtex_brain_putamen_basal
rs2844663 6 30815951 VARS2 ENSG00000137411.12 1.207E-6 0 66031 gtex_brain_putamen_basal
rs2844662 6 30817879 VARS2 ENSG00000137411.12 1.207E-6 0 64103 gtex_brain_putamen_basal
rs2517575 6 30819465 VARS2 ENSG00000137411.12 1.207E-6 0 62517 gtex_brain_putamen_basal
rs2535327 6 30826904 VARS2 ENSG00000137411.12 4.243E-7 0 -55078 gtex_brain_putamen_basal
rs2535326 6 30832063 VARS2 ENSG00000137411.12 1.207E-6 0 -49919 gtex_brain_putamen_basal
rs2844655 6 30837538 VARS2 ENSG00000137411.12 4.243E-7 0 -44444 gtex_brain_putamen_basal
rs2517573 6 30840147 VARS2 ENSG00000137411.12 1.208E-6 0 -41835 gtex_brain_putamen_basal
rs2535329 6 30842674 VARS2 ENSG00000137411.12 4.356E-7 0 -39308 gtex_brain_putamen_basal
rs1264334 6 30844260 VARS2 ENSG00000137411.12 1.207E-6 0 -37722 gtex_brain_putamen_basal
rs1264330 6 30846919 VARS2 ENSG00000137411.12 9.508E-7 0 -35063 gtex_brain_putamen_basal
rs885910 6 30849124 VARS2 ENSG00000137411.12 1.24E-6 0 -32858 gtex_brain_putamen_basal
rs1264328 6 30850142 VARS2 ENSG00000137411.12 8.852E-7 0 -31840 gtex_brain_putamen_basal
rs1264327 6 30850582 VARS2 ENSG00000137411.12 4.243E-7 0 -31400 gtex_brain_putamen_basal
rs1264323 6 30855907 VARS2 ENSG00000137411.12 9.018E-7 0 -26075 gtex_brain_putamen_basal
rs1049623 6 30864829 VARS2 ENSG00000137411.12 9.018E-7 0 -17153 gtex_brain_putamen_basal
rs1264315 6 30865058 VARS2 ENSG00000137411.12 2E-6 0 -16924 gtex_brain_putamen_basal
rs41266876 6 30884251 VARS2 ENSG00000137411.12 1.472E-7 0 2269 gtex_brain_putamen_basal
rs9262291 6 30886015 VARS2 ENSG00000137411.12 8.482E-7 0 4033 gtex_brain_putamen_basal
rs9281079 6 30891705 VARS2 ENSG00000137411.12 8.234E-7 0 9723 gtex_brain_putamen_basal
rs2240804 6 30920890 VARS2 ENSG00000137411.12 5.526E-7 0 38908 gtex_brain_putamen_basal
rs17189763 6 30923527 VARS2 ENSG00000137411.12 5.526E-7 0 41545 gtex_brain_putamen_basal
rs9264904 6 31272553 VARS2 ENSG00000137411.12 7.804E-7 0 390571 gtex_brain_putamen_basal

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0000166 nucleotide binding IEA -
GO:0005524 ATP binding IEA -
GO:0004832 valine-tRNA ligase activity IEA -
GO:0016874 ligase activity IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0006438 valyl-tRNA氨酰化 IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005737 cytoplasm IEA -
GO:0005739 mitochondrion IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG VALINE LEUCINE AND ISOLEUCINE BIOSYNTHESIS 11 8 All SZGR 2.0 genes in this pathway
KEGG AMINOACYL TRNA BIOSYNTHESIS 41 33 All SZGR 2.0 genes in this pathway
REACTOME MITOCHONDRIAL TRNA AMINOACYLATION 21 17 All SZGR 2.0 genes in this pathway
REACTOME TRNA AMINOACYLATION 42 34 All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP 236 139 All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS EARLY PROGENITOR 532 309 All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P6 91 44 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER DN 540 340 All SZGR 2.0 genes in this pathway
LEE RECENT THYMIC EMIGRANT 227 128 All SZGR 2.0 genes in this pathway