Gene Page: LINC00116
Summary ?
| GeneID | 205251 |
| Symbol | LINC00116 |
| Synonyms | NCRNA00116 |
| Description | long intergenic non-protein coding RNA 116 |
| Reference | HGNC:HGNC:27339|HPRD:14131| |
| Gene type | ncRNA |
| Map location | 2q13 |
| Pascal p-value | 0.011 |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Frontal Cortex BA9 Hippocampus Hypothalamus Nucleus accumbens basal ganglia Putamen basal ganglia |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS |
Section I. Genetics and epigenetics annotation
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs143585021 | 2 | 111032140 | LINC00116 | ENSG00000175701.6 | 1.959E-6 | 0.03 | -51624 | gtex_brain_ba24 |
| rs116540681 | 2 | 110866150 | LINC00116 | ENSG00000175701.6 | 2.816E-6 | 0 | 114366 | gtex_brain_putamen_basal |
| rs10177822 | 2 | 110883707 | LINC00116 | ENSG00000175701.6 | 3.058E-6 | 0 | 96809 | gtex_brain_putamen_basal |
| rs10177824 | 2 | 110883709 | LINC00116 | ENSG00000175701.6 | 3.058E-6 | 0 | 96807 | gtex_brain_putamen_basal |
| rs2271242 | 2 | 110887138 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 93378 | gtex_brain_putamen_basal |
| rs10196865 | 2 | 110891054 | LINC00116 | ENSG00000175701.6 | 2.462E-6 | 0 | 89462 | gtex_brain_putamen_basal |
| rs74882894 | 2 | 110908041 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 72475 | gtex_brain_putamen_basal |
| rs114043910 | 2 | 110908690 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 71826 | gtex_brain_putamen_basal |
| rs10174448 | 2 | 110917627 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 62889 | gtex_brain_putamen_basal |
| rs6744318 | 2 | 110929463 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 51053 | gtex_brain_putamen_basal |
| rs35182631 | 2 | 110929959 | LINC00116 | ENSG00000175701.6 | 4.357E-9 | 0 | 50557 | gtex_brain_putamen_basal |
| rs397868746 | 2 | 110929963 | LINC00116 | ENSG00000175701.6 | 4.357E-9 | 0 | 50553 | gtex_brain_putamen_basal |
| rs67219739 | 2 | 110933381 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 47135 | gtex_brain_putamen_basal |
| rs13416417 | 2 | 110934448 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 46068 | gtex_brain_putamen_basal |
| rs11898910 | 2 | 110937101 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 43415 | gtex_brain_putamen_basal |
| rs76413811 | 2 | 110939738 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 40778 | gtex_brain_putamen_basal |
| rs10202266 | 2 | 110940999 | LINC00116 | ENSG00000175701.6 | 1.474E-6 | 0 | 39517 | gtex_brain_putamen_basal |
| rs73954633 | 2 | 110941645 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 38871 | gtex_brain_putamen_basal |
| rs10205807 | 2 | 110942196 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 38320 | gtex_brain_putamen_basal |
| rs116607139 | 2 | 110945151 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 35365 | gtex_brain_putamen_basal |
| rs146943169 | 2 | 110947029 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 33487 | gtex_brain_putamen_basal |
| rs6711385 | 2 | 110947941 | LINC00116 | ENSG00000175701.6 | 3.015E-10 | 0 | 32575 | gtex_brain_putamen_basal |
| rs188843131 | 2 | 110951037 | LINC00116 | ENSG00000175701.6 | 6.224E-9 | 0 | 29479 | gtex_brain_putamen_basal |
| rs148704263 | 2 | 110952370 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 28146 | gtex_brain_putamen_basal |
| rs9807986 | 2 | 110953065 | LINC00116 | ENSG00000175701.6 | 3.052E-6 | 0 | 27451 | gtex_brain_putamen_basal |
| rs6714985 | 2 | 110956800 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 23716 | gtex_brain_putamen_basal |
| rs9326627 | 2 | 110958125 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 22391 | gtex_brain_putamen_basal |
| rs3789726 | 2 | 110962726 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 17790 | gtex_brain_putamen_basal |
| rs11894410 | 2 | 110964315 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 16201 | gtex_brain_putamen_basal |
| rs141122803 | 2 | 110965384 | LINC00116 | ENSG00000175701.6 | 5.104E-9 | 0 | 15132 | gtex_brain_putamen_basal |
| rs9326628 | 2 | 110966667 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 13849 | gtex_brain_putamen_basal |
| rs73954639 | 2 | 110972557 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 7959 | gtex_brain_putamen_basal |
| rs73954641 | 2 | 110972810 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 7706 | gtex_brain_putamen_basal |
| rs61730258 | 2 | 110973266 | LINC00116 | ENSG00000175701.6 | 6.574E-10 | 0 | 7250 | gtex_brain_putamen_basal |
| rs73954642 | 2 | 110973612 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 6904 | gtex_brain_putamen_basal |
| rs13429750 | 2 | 110974128 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 6388 | gtex_brain_putamen_basal |
| rs11904760 | 2 | 110974695 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 5821 | gtex_brain_putamen_basal |
| rs13421450 | 2 | 110975699 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | 4817 | gtex_brain_putamen_basal |
| rs10171646 | 2 | 110977357 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 3159 | gtex_brain_putamen_basal |
| rs10170120 | 2 | 110978090 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 2426 | gtex_brain_putamen_basal |
| rs10211181 | 2 | 110979061 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 1455 | gtex_brain_putamen_basal |
| rs67394248 | 2 | 110979718 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 798 | gtex_brain_putamen_basal |
| rs9326629 | 2 | 110980108 | LINC00116 | ENSG00000175701.6 | 3.036E-10 | 0 | 408 | gtex_brain_putamen_basal |
| rs10170204 | 2 | 110980494 | LINC00116 | ENSG00000175701.6 | 1.052E-8 | 0 | 22 | gtex_brain_putamen_basal |
| rs1848683 | 2 | 110980685 | LINC00116 | ENSG00000175701.6 | 1.512E-9 | 0 | -169 | gtex_brain_putamen_basal |
| rs13386516 | 2 | 110982530 | LINC00116 | ENSG00000175701.6 | 1.056E-8 | 0 | -2014 | gtex_brain_putamen_basal |
| rs7604411 | 2 | 110983320 | LINC00116 | ENSG00000175701.6 | 1.058E-8 | 0 | -2804 | gtex_brain_putamen_basal |
| rs137856165 | 2 | 110984277 | LINC00116 | ENSG00000175701.6 | 3.052E-10 | 0 | -3761 | gtex_brain_putamen_basal |
| rs11965102 | 2 | 110985230 | LINC00116 | ENSG00000175701.6 | 3.075E-10 | 0 | -4714 | gtex_brain_putamen_basal |
| rs182392917 | 2 | 110985990 | LINC00116 | ENSG00000175701.6 | 1.005E-10 | 0 | -5474 | gtex_brain_putamen_basal |
Section II. Transcriptome annotation
General gene expression (GTEx)
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 V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| STARK PREFRONTAL CORTEX 22Q11 DELETION DN | 517 | 309 | All SZGR 2.0 genes in this pathway |
| LEE RECENT THYMIC EMIGRANT | 227 | 128 | All SZGR 2.0 genes in this pathway |
| GOBERT OLIGODENDROCYTE DIFFERENTIATION UP | 570 | 339 | All SZGR 2.0 genes in this pathway |
| FORTSCHEGGER PHF8 TARGETS UP | 279 | 155 | All SZGR 2.0 genes in this pathway |
| ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY | 1839 | 928 | All SZGR 2.0 genes in this pathway |