Variant report
| Variant | rs594008 |
|---|---|
| Chromosome Location | chr6:56291176-56291177 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000220666 | Chromatin interaction |
| ENSG00000266793 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs11753813 | 0.83[GIH][hapmap] |
| rs1535612 | 0.83[GIH][hapmap] |
| rs2273973 | 0.83[GIH][hapmap] |
| rs4236139 | 0.83[GIH][hapmap] |
| rs4454141 | 0.81[GIH][hapmap] |
| rs4715626 | 0.83[GIH][hapmap] |
| rs4715627 | 0.83[GIH][hapmap] |
| rs6459161 | 0.81[GIH][hapmap] |
| rs6904202 | 0.83[GIH][hapmap] |
| rs6911502 | 0.81[GIH][hapmap] |
| rs6919608 | 0.83[GIH][hapmap] |
| rs9396213 | 0.81[GIH][hapmap] |
| rs9475713 | 0.83[GIH][hapmap] |
| rs9475714 | 0.83[GIH][hapmap] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv491933 | chr6:56177722-57171010 | Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 51 gene(s) | inside rSNPs | diseases |
| 2 | nsv830666 | chr6:56243743-56419599 | Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 9 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs594008 | LRRC1 | cis | cerebellum | SCAN |
| rs594008 | DST | cis | cerebellum | SCAN |
| rs594008 | ZNF451 | cis | parietal | SCAN |
| rs594008 | TRAM2 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
