Gene Page: SKIV2L
Summary ?
| GeneID | 6499 |
| Symbol | SKIV2L |
| Synonyms | 170A|DDX13|HLP|SKI2|SKI2W|SKIV2|SKIV2L1|THES2 |
| Description | Ski2 like RNA helicase |
| Reference | MIM:600478|HGNC:HGNC:10898|Ensembl:ENSG00000204351|HPRD:02724|Vega:OTTHUMG00000031146 |
| Gene type | protein-coding |
| Map location | 6p21 |
| Pascal p-value | 6.607E-7 |
| Sherlock p-value | 0.141 |
| Fetal beta | -0.65 |
| DMG | 2 (# studies) |
| eGene | Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Frontal Cortex BA9 Hypothalamus |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:vanEijk_2014 | Genome-wide DNA methylation analysis | This dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). | 2 |
| DMG:Wockner_2014 | Genome-wide DNA methylation analysis | This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). | 2 |
| GSMA_I | Genome scan meta-analysis | Psr: 0.033 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg24271566 | 6 | 31936481 | SKIV2L | 7.03E-5 | 0.472 | 0.025 | DMG:Wockner_2014 |
| cg13035743 | 6 | 32119685 | SKIV2L | 3.47E-5 | 4.88 | DMG:vanEijk_2014 |
Section II. Transcriptome annotation
General gene expression (GTEx)
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 |
| TMEM184B | 0.86 | 0.87 |
| ACO2 | 0.85 | 0.85 |
| GM2A | 0.84 | 0.82 |
| IPO13 | 0.84 | 0.85 |
| KLHL21 | 0.83 | 0.83 |
| ALAD | 0.83 | 0.84 |
| TMEM189 | 0.82 | 0.81 |
| AATK | 0.82 | 0.79 |
| PDK2 | 0.82 | 0.80 |
| PYCR2 | 0.82 | 0.81 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| C9orf46 | -0.51 | -0.55 |
| RPS3AP47 | -0.48 | -0.50 |
| RPL31 | -0.47 | -0.51 |
| RPL13AP22 | -0.47 | -0.67 |
| FAM36A | -0.47 | -0.46 |
| RPL24 | -0.45 | -0.49 |
| RBMX2 | -0.45 | -0.48 |
| FAM159B | -0.45 | -0.69 |
| EXOSC8 | -0.45 | -0.46 |
| RP11-1134I14.1 | -0.45 | -0.51 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0000166 | nucleotide binding | IEA | - | |
| GO:0003676 | nucleic acid binding | IEA | - | |
| GO:0003723 | RNA binding | IEA | - | |
| GO:0004004 | ATP-dependent RNA helicase activity | TAS | 7610041 | |
| GO:0005515 | protein binding | IPI | 15231747 | |
| GO:0005524 | ATP binding | IEA | - | |
| GO:0016787 | hydrolase activity | IEA | - | |
| GO:0016818 | hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides | IEA | - | |
| GO:0008026 | ATP-dependent helicase activity | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005634 | nucleus | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG RNA DEGRADATION | 59 | 37 | All SZGR 2.0 genes in this pathway |
| WANG CLIM2 TARGETS UP | 269 | 146 | All SZGR 2.0 genes in this pathway |
| MARTORIATI MDM4 TARGETS FETAL LIVER DN | 514 | 319 | All SZGR 2.0 genes in this pathway |
| BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS | 882 | 572 | All SZGR 2.0 genes in this pathway |
| NOUZOVA TRETINOIN AND H4 ACETYLATION | 143 | 85 | All SZGR 2.0 genes in this pathway |
| BROWNE HCMV INFECTION 14HR DN | 298 | 200 | All SZGR 2.0 genes in this pathway |
| DEBIASI APOPTOSIS BY REOVIRUS INFECTION DN | 287 | 208 | All SZGR 2.0 genes in this pathway |
| WELCSH BRCA1 TARGETS DN | 141 | 92 | All SZGR 2.0 genes in this pathway |
| BLUM RESPONSE TO SALIRASIB UP | 245 | 159 | All SZGR 2.0 genes in this pathway |
| MOOTHA PGC | 420 | 269 | All SZGR 2.0 genes in this pathway |
| YOSHIMURA MAPK8 TARGETS UP | 1305 | 895 | All SZGR 2.0 genes in this pathway |
| BROWNE HCMV INFECTION 4HR DN | 254 | 158 | All SZGR 2.0 genes in this pathway |
| JUBAN TARGETS OF SPI1 AND FLI1 UP | 115 | 73 | All SZGR 2.0 genes in this pathway |