Gene Page: LRTOMT
Summary ?
| GeneID | 220074 |
| Symbol | LRTOMT |
| Synonyms | CFAP111|DFNB63|LRRC51 |
| Description | leucine rich transmembrane and O-methyltransferase domain containing |
| Reference | MIM:612414|HGNC:HGNC:25033|Ensembl:ENSG00000184154|HPRD:11839|Vega:OTTHUMG00000154887 |
| Gene type | protein-coding |
| Map location | 11q13.4 |
| Pascal p-value | 0.04 |
| Fetal beta | -0.601 |
| DMG | 1 (# studies) |
| eGene | Cerebellum Hypothalamus Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| 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). | 1 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg24707890 | 11 | 71802403 | LRTOMT | 1.504E-4 | -0.573 | 0.032 | DMG:Wockner_2014 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs12450116 | chr17 | 53333924 | LRTOMT | 220074 | 0.04 | trans | ||
| rs11080561 | chr18 | 12257229 | LRTOMT | 220074 | 0.17 | trans | ||
| rs4465127 | chrX | 75360522 | LRTOMT | 220074 | 0 | trans | ||
| rs4892433 | chrX | 75676726 | LRTOMT | 220074 | 0.13 | trans | ||
| rs6607729 | chrX | 75719233 | LRTOMT | 220074 | 0.07 | trans | ||
| rs6648110 | chrX | 75871494 | LRTOMT | 220074 | 0.01 | trans | ||
| rs5982228 | chrX | 75901960 | LRTOMT | 220074 | 0.07 | trans | ||
| rs7059710 | chrX | 75917211 | LRTOMT | 220074 | 0.06 | trans | ||
| rs6648142 | chrX | 75928565 | LRTOMT | 220074 | 7.002E-4 | trans | ||
| rs5982248 | chrX | 75928669 | LRTOMT | 220074 | 0.1 | trans | ||
| rs2079184 | chrX | 75938315 | LRTOMT | 220074 | 0.06 | trans | ||
| rs234254 | chrX | 75955780 | LRTOMT | 220074 | 0.07 | trans | ||
| rs192069 | chrX | 76053555 | LRTOMT | 220074 | 3.418E-4 | trans | ||
| rs190169 | chrX | 76135654 | LRTOMT | 220074 | 0.16 | trans | ||
| rs232944 | chrX | 76151286 | LRTOMT | 220074 | 0.07 | trans | ||
| rs7881752 | chrX | 76197379 | LRTOMT | 220074 | 0.02 | trans | ||
| rs5982340 | chrX | 76230686 | LRTOMT | 220074 | 7.002E-4 | trans | ||
| rs3099706 | 0 | LRTOMT | 220074 | 0.07 | trans | |||
| rs16983508 | chrX | 99747940 | LRTOMT | 220074 | 0 | trans |
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.
No co-expressed genes in brain regions
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005515 | protein binding | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| DODD NASOPHARYNGEAL CARCINOMA UP | 1821 | 933 | All SZGR 2.0 genes in this pathway |
| LASTOWSKA NEUROBLASTOMA COPY NUMBER DN | 800 | 473 | All SZGR 2.0 genes in this pathway |
| CREIGHTON ENDOCRINE THERAPY RESISTANCE 2 | 473 | 224 | All SZGR 2.0 genes in this pathway |
| GRADE COLON AND RECTAL CANCER DN | 101 | 65 | 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 |