Variant report
| Variant | rs17747001 |
|---|---|
| Chromosome Location | chr3:54511119-54511120 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs11130423 | 0.86[CHD][hapmap];0.82[JPT][hapmap];0.81[YRI][hapmap] |
| rs11706275 | 0.92[CEU][hapmap];0.90[JPT][hapmap] |
| rs11708855 | 0.92[CEU][hapmap];0.91[JPT][hapmap];0.97[EUR][1000 genomes] |
| rs11711518 | 0.82[JPT][hapmap];0.81[YRI][hapmap] |
| rs11713519 | 0.91[EUR][1000 genomes] |
| rs13082611 | 0.96[CEU][hapmap];0.95[TSI][hapmap] |
| rs17140 | 0.81[JPT][hapmap] |
| rs17747054 | 0.92[CEU][hapmap];0.95[EUR][1000 genomes] |
| rs6445680 | 0.91[CHD][hapmap];0.86[JPT][hapmap] |
| rs6445690 | 0.81[JPT][hapmap] |
| rs6775352 | 0.81[JPT][hapmap] |
| rs6796049 | 0.92[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.89[YRI][hapmap] |
| rs7373217 | 0.96[CEU][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes] |
| rs7373390 | 0.96[CEU][hapmap];0.90[EUR][1000 genomes] |
| rs7373932 | 1.00[CEU][hapmap] |
| rs7432776 | 0.81[ASW][hapmap];0.84[CEU][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.89[LWK][hapmap];0.95[TSI][hapmap];0.85[YRI][hapmap] |
| rs7614229 | 0.84[CEU][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.93[TSI][hapmap] |
| rs9820301 | 0.89[EUR][1000 genomes] |
| rs9855891 | 0.96[CEU][hapmap];0.95[TSI][hapmap] |
| rs9874177 | 0.81[JPT][hapmap] |
| rs9879189 | 0.96[CEU][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1014595 | chr3:53944473-54846754 | Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv817210 | chr3:54365684-54511164 | Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 3 | nsv428084 | chr3:54404258-54742756 | Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 4 | nsv998970 | chr3:54455794-54516789 | Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 5 | nsv876810 | chr3:54480798-54585416 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17747001 | CISH | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
