Variant report
| Variant | rs41375446 |
|---|---|
| Chromosome Location | chr6:28024408-28024409 |
| allele | C/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:28024259..28026067-chr6:28029908..28032132,2 | K562 | blood: | |
| 2 | chr6:28023183..28024935-chr6:43739349..43741266,2 | K562 | blood: | |
| 3 | chr6:27856950..27859637-chr6:28022500..28024631,2 | K562 | blood: | |
| 4 | chr6:28024391..28026984-chr6:28098604..28100531,2 | MCF-7 | breast: | |
| 5 | chr6:28022742..28025114-chr6:28059303..28061030,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000197153 | Chromatin interaction |
| ENSG00000112715 | Chromatin interaction |
| ENSG00000219891 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:44)
| rs_ID | r2[population] |
|---|---|
| rs10484402 | 0.82[MEX][hapmap] |
| rs1150676 | 1.00[CEU][hapmap] |
| rs1150680 | 1.00[CEU][hapmap] |
| rs1150683 | 1.00[CEU][hapmap] |
| rs1225709 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs1416997 | 1.00[CEU][hapmap] |
| rs1480646 | 1.00[CEU][hapmap] |
| rs149957 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap] |
| rs1529749 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap] |
| rs1613149 | 1.00[CEU][hapmap] |
| rs16868156 | 0.82[MEX][hapmap] |
| rs169432 | 1.00[CEU][hapmap] |
| rs169433 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs172164 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs1770130 | 1.00[CEU][hapmap] |
| rs17709097 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap] |
| rs17709109 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs17709523 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs17765491 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs1871695 | 1.00[CEU][hapmap] |
| rs2030008 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs203865 | 1.00[CEU][hapmap] |
| rs203870 | 1.00[CEU][hapmap] |
| rs203881 | 1.00[CEU][hapmap] |
| rs203885 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs203894 | 1.00[CEU][hapmap] |
| rs2394044 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap] |
| rs2791334 | 1.00[CEU][hapmap] |
| rs427348 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs539474 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs9348782 | 1.00[CEU][hapmap];1.00[JPT][hapmap] |
| rs9348785 | 1.00[CHB][hapmap] |
| rs9348790 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs9348795 | 1.00[CEU][hapmap];0.94[GIH][hapmap] |
| rs9357054 | 0.82[MEX][hapmap] |
| rs9357055 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs9357056 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap] |
| rs9368540 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap] |
| rs9368545 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs9368562 | 1.00[CEU][hapmap] |
| rs9380042 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs9393873 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs9393874 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs9393879 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv830619 | chr6:27872302-28062544 | Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 38 gene(s) | inside rSNPs | diseases |
| 2 | nsv883513 | chr6:27982152-28033087 | Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
| 3 | nsv966688 | chr6:28019147-28028399 | Bivalent Enhancer | TF binding regionChromatin interactive region | 6 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
