Gene Page: XKR6
Summary ?
| GeneID | 286046 |
| Symbol | XKR6 |
| Synonyms | C8orf21|C8orf5|C8orf7|XRG6 |
| Description | XK related 6 |
| Reference | HGNC:HGNC:27806|Ensembl:ENSG00000171044|HPRD:12926|Vega:OTTHUMG00000129351 |
| Gene type | protein-coding |
| Map location | 8p23.1 |
| Pascal p-value | 0.007 |
| Fetal beta | 0.776 |
| eGene | Myers' cis & trans |
| Support | CompositeSet |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:GWAScat | Genome-wide Association Studies | This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb. | |
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DNM:Fromer_2014 | Whole Exome Sequencing analysis | This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA. |
Section I. Genetics and epigenetics annotation
DNM table
| Gene | Chromosome | Position | Ref | Alt | Transcript | AA change | Mutation type | Sift | CG46 | Trait | Study |
|---|---|---|---|---|---|---|---|---|---|---|---|
| XKR6 | chr8 | 11058086 | T | C | NM_173683 NM_173683 | . p.255R>G | splice-donor-ex2ag missense | Schizophrenia | DNM:Fromer_2014 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs17572651 | chr1 | 218943612 | XKR6 | 286046 | 0.13 | trans | ||
| rs16829545 | chr2 | 151977407 | XKR6 | 286046 | 1.18E-8 | trans | ||
| rs7584986 | chr2 | 184111432 | XKR6 | 286046 | 5.424E-6 | trans | ||
| rs9810143 | chr3 | 5060209 | XKR6 | 286046 | 0.15 | trans | ||
| rs10491487 | chr5 | 80323367 | XKR6 | 286046 | 0 | trans | ||
| rs11139334 | chr9 | 84209393 | XKR6 | 286046 | 0.08 | trans | ||
| rs16955618 | chr15 | 29937543 | XKR6 | 286046 | 3.139E-11 | 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 V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| ZHOU INFLAMMATORY RESPONSE FIMA DN | 284 | 156 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K4ME3 | 718 | 401 | All SZGR 2.0 genes in this pathway |
| FIGUEROA AML METHYLATION CLUSTER 6 DN | 38 | 19 | All SZGR 2.0 genes in this pathway |
| PEDRIOLI MIR31 TARGETS DN | 418 | 245 | All SZGR 2.0 genes in this pathway |