Variant report
| Variant | rs9835975 |
|---|---|
| Chromosome Location | chr3:54419704-54419705 |
| 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:20)
| rs_ID | r2[population] |
|---|---|
| rs11713798 | 0.92[CEU][hapmap];0.92[CHB][hapmap];0.92[EUR][1000 genomes] |
| rs11715872 | 0.87[EUR][1000 genomes] |
| rs11717967 | 0.93[CEU][hapmap] |
| rs1375517 | 0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes] |
| rs1574200 | 0.93[CEU][hapmap];1.00[CHB][hapmap] |
| rs17054035 | 0.84[CEU][hapmap] |
| rs1868505 | 1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs28499181 | 0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs56027715 | 0.87[EUR][1000 genomes] |
| rs59598269 | 0.85[EUR][1000 genomes] |
| rs6445649 | 0.91[CHB][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs6445650 | 0.90[CEU][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs6445652 | 0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs6445654 | 1.00[CEU][hapmap];1.00[CHB][hapmap] |
| rs6445662 | 0.93[CEU][hapmap] |
| rs6807267 | 1.00[CEU][hapmap];0.84[CHB][hapmap] |
| rs7427395 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs7431093 | 1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs7638153 | 0.83[CEU][hapmap];1.00[CHB][hapmap] |
| rs9818236 | 0.92[CHB][hapmap] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1003621 | chr3:53448934-54425322 | Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 31 gene(s) | inside rSNPs | diseases |
| 2 | 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 |
| 3 | 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 |
| 4 | 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 |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:54411200-54423400 | Weak transcription | Hela-S3 | cervix |
