Gene Page:VARS

Summary?
GeneID 7407
Symbol VARS
Synonyms G7A|VARS1|VARS2
Description valyl-tRNA synthetase
Reference MIM:192150|HGNC:HGNC:12651|Ensembl:ENSG00000204394|HPRD:10362|Vega:OTTHUMG00000031286
Gene type protein-coding
Map location 6p21.3
Pascal p-value 1E-12
Fetal beta 0.611
eGene 元
Support Ascano FMRP targets

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I Genome scan meta-analysis Psr: 0.033
Literature High-throughput literature-search 与精神分裂症Co-occurance关键词:schizophrenia,schizophrenias Click to show details
Network Shortest path distance of core genes in the Human protein-protein interaction network Contribution to shortest path in PPI network: 0.0113

Section I. Genetics and epigenetics annotation


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
SLCO2B1 0.83 0.84
MMRN2 0.83 0.87
A2M 0.78 0.79
ITIH5 0.77 0.83
TNFRSF1B 0.77 0.78
CDH5 0.74 0.80
BGN 0.74 0.76
ENG 0.74 0.80
CLEC14A 0.74 0.75
LRRC32 0.73 0.80
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
ZNF32 -0.52 -0.58
C8orf59 -0.51 -0.59
SNHG12 -0.51 -0.56
OXSM -0.50 -0.57
NDUFAF2 -0.50 -0.56
C12orf45 -0.49 -0.58
ST20 -0.49 -0.55
MTIF3 -0.47 -0.52
ATP5E -0.47 -0.60
MRPL21 -0.46 -0.52

Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0000166 nucleotide binding IEA -
GO:0005515 protein binding IPI 17353931
GO:0005524 ATP binding IEA -
GO:0004832 valine-tRNA ligase activity IDA 8428657
GO:0004832 valine-tRNA ligase activity IEA -
GO:0016874 ligase activity IEA -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0006414 translational elongation NAS -
GO:0006438 valyl-tRNA aminoacylation IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005622 intracellular NAS -
GO:0005737 cytoplasm IEA -
GO:0005739 mitochondrion IEA -

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
EEF1A1 CCS-3 | CCS3 | EEF-1 | EEF1A | EF-Tu | EF1A | FLJ25721 | GRAF-1EF | HNGC:16303 | LENG7 | MGC102687 | MGC131894 | MGC16224 | PTI1 | eEF1A-1 eukaryotic translation elongation factor 1 alpha 1 - HPRD,BioGRID 2556394|3169261
EEF1A2 EEF1AL | EF-1-alpha-2 | EF1A | FLJ41696 | HS1 | STN | STNL eukaryotic translation elongation factor 1 alpha 2 Affinity Capture-MS BioGRID 17353931
EEF1B2 EEF1B | EEF1B1 | EF1B eukaryotic translation elongation factor 1 beta 2 - HPRD,BioGRID 2556394|3169261
EEF1D EF-1D | EF1D | FLJ20897 | FP1047 eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein) - HPRD 2556394|3169261
EEF1D EF-1D | EF1D | FLJ20897 | FP1047 eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein) - HPRD,BioGRID 2556394|3169261|8294461
EEF1G EF1G | GIG35 eukaryotic translation elongation factor 1 gamma Co-purification BioGRID 3169261
EPB41 4.1R | EL1 | HE erythrocyte membrane protein band 4.1 (elliptocytosis 1, RH-linked) Affinity Capture-MS BioGRID 17353931
GFM1 COXPD1 | EFG | EFG1 | EFGM | EGF1 | FLJ12662 | FLJ13632 | FLJ20773 | GFM | hEFG1 G elongation factor, mitochondrial 1 - HPRD 2556394|3169261
HLA-B AS | HLA-B-7301 | HLA-B73 | HLAB | HLAC | SPDA1 major histocompatibility complex, class I, B Affinity Capture-MS BioGRID 17353931
IKBKG AMCBX1 | FIP-3 | FIP3 | Fip3p | IKK-gamma | IP | IP1 | IP2 | IPD2 | NEMO inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma - HPRD 14743216
TFE3 RCCP2 | TFEA | bHLHe33 transcription factor binding to IGHM enhancer 3 Affinity Capture-MS BioGRID 17353931
TRAF6 MGC:3310 | RNF85 TNF receptor-associated factor 6 Affinity Capture-MS BioGRID 17353931


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 CYTOSOLIC TRNA AMINOACYLATION 24 19 All SZGR 2.0 genes in this pathway
REACTOME TRNA AMINOACYLATION 42 34 All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382 904 All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP 368 234 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY UP 430 232 All SZGR 2.0 genes in this pathway
GINESTIER BREAST CANCER ZNF217 AMPLIFIED DN 335 193 All SZGR 2.0 genes in this pathway
PROVENZANI METASTASIS UP 194 112 All SZGR 2.0 genes in this pathway
BERENJENO转换BY RHOA UP 536 340 All SZGR 2.0 genes in this pathway
EBAUER TARGETS OF PAX3 FOXO1 FUSION UP 207 128 All SZGR 2.0 genes in this pathway
PATIL LIVER CANCER 747 453 All SZGR 2.0 genes in this pathway
CEBALLOS TARGETS OF TP53 AND MYC DN 38 31 All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 1652 1023 All SZGR 2.0 genes in this pathway
NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE DN 121 79 All SZGR 2.0 genes in this pathway
MANALO HYPOXIA DN 289 166 All SZGR 2.0 genes in this pathway
SCHUHMACHER MYC TARGETS UP 80 57 All SZGR 2.0 genes in this pathway
KLEIN PRIMARY EFFUSION LYMPHOMA UP 51 29 All SZGR 2.0 genes in this pathway
PENG GLUTAMINE DEPRIVATION DN 337 230 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237 837 All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY NO BLOOD UP 222 139 All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY UP 487 303 All SZGR 2.0 genes in this pathway
LEE CALORIE RESTRICTION NEOCORTEX DN 88 58 All SZGR 2.0 genes in this pathway
ABE VEGFA TARGETS 30MIN 29 21 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953 554 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911 527 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011 592 All SZGR 2.0 genes in this pathway
SANSOM APC MYC TARGETS 217 138 All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS REQUIRE MYC 210 123 All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS DN 292 189 All SZGR 2.0 genes in this pathway
BOCHKIS FOXA2 TARGETS 425 261 All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR DN 277 166 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668 419 All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES UP 605 377 All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC UP 72 53 All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN 253 192 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 14 143 86 All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2 VIA ERCC6 UP 40 30 All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP 194 133 All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION UP 570 339 All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES 462 273 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-137 52 58 1A hsa-miR-137 UAUUGCUUAAGAAUACGCGUAG